>gnl|viroverse|44210.1|gb|MF777057 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44210.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44210.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAG-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAAAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGTTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44211.1|gb|MF777058 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44211.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44211.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCGGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAAAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGRGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44213.1|gb|MF777060 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44213.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44213.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATAAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAATAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTG--CTTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAARGA >gnl|viroverse|44792.1|gb|MF777070 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44792.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44792.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGA TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGAAATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44789.1|gb|MF777067 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44789.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44789.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAGTAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATACTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGGATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44201.1|gb|MF777048 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44201.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44201.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44203.1|gb|MF777050 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44203.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44203.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44202.1|gb|MF777049 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44202.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44202.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATRGGAGGAGATATGAAGRACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44790.1|gb|MF777068 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44790.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44790.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCATTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATAGCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44205.1|gb|MF777052 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44205.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44205.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44207.1|gb|MF777054 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44207.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44207.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44215.1|gb|MF777062 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44215.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44215.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44216.1|gb|MF777063 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44216.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44216.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44788.1|gb|MF777066 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44788.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44788.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44791.1|gb|MF777069 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44791.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44791.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44214.1|gb|MF777061 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44214.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44214.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44200.1|gb|MF777047 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44200.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44200.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGA TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTGCTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGGCATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44204.1|gb|MF777051 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44204.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44204.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATG----------------------------------------------------------AAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCRAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGGCATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGCAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44209.1|gb|MF777056 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44209.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44209.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATATGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGGCATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44217.1|gb|MF777064 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44217.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44217.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGGCATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44206.1|gb|MF777053 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44206.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44206.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGGCATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44208.1|gb|MF777055 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44208.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44208.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGGCATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44212.1|gb|MF777059 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44212.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44212.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGGCATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44218.1|gb|MF777065 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44218.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1996] [note=days-post-seroconversion:74 viral-load:14000 CD4-count:700 CD8-count:665 gene:env] HIV-1 viroverse:44218.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGGCATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42002.1|gb|MF777080 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42002.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42002.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GGTACTAG TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41936.1|gb|MF777075 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41936.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:41936.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GGTACTAG TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41941.1|gb|MF777078 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41941.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:41941.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GGTACTAG TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGCACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42009.1|gb|MF777085 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42009.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42009.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GGTACTAG TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGCACAAGACCCAACAACAATACAAGRAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42835.1|gb|MF777093 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42835.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42835.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GGTACTTA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGC-ATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTTTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACRGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAATTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42004.1|gb|MF777081 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42004.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42004.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAGTATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAG TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGGCAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AGTAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42012.1|gb|MF777088 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42012.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42012.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAG---------GGTACTAG TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTCTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------AGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTACATCAAATATCACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCGAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42008.1|gb|MF777084 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42008.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42008.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAC TGGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTCCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCGAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42001.1|gb|MF777079 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42001.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42001.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACGAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCTAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------AGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAACGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42011.1|gb|MF777087 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42011.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42011.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACGAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCTAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------AGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACARCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41935.1|gb|MF777074 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41935.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:41935.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAC TGGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAACCTGTAGTAATTAATTGCACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42010.1|gb|MF777086 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42010.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42010.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAC TGGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAAGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGC------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCGAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42013.1|gb|MF777089 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42013.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42013.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- ----------------------------GTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GGTACTAC TGGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCCAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42830.1|gb|MF777091 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42830.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42830.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAC TGGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCGAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42005.1|gb|MF777082 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42005.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42005.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAC TGGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42832.1|gb|MF777092 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42832.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42832.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GGTACTAC TGGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTTTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAATTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCGAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41641.1|gb|MF777073 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41641.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:41641.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTGA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42827.1|gb|MF777090 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42827.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42827.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTAATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGTTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AACACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41639.1|gb|MF777072 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41639.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:41639.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42006.1|gb|MF777083 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42006.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:42006.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GGTACTAC TGGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41638.1|gb|MF777071 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41638.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:41638.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41939.1|gb|MF777077 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41939.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:41939.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCCAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41938.1|gb|MF777076 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41938.1] [isolation-source=plasma from subject F1] [collection-date=Sep-1996] [note=days-post-seroconversion:262 viral-load:15000 CD4-count:252 CD8-count:365 gene:env] HIV-1 viroverse:41938.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41512.2|gb|MF777098 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41512.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:41512.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGG------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGRCCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42044.2|gb|MF777107 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42044.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42044.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AACAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41503.2|gb|MF777094 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41503.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:41503.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAAAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAGATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42392.2|gb|MF777112 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42392.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42392.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAAAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAGATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42393.2|gb|MF777113 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42393.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42393.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAAAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAGATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42038.2|gb|MF777101 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42038.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42038.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAGGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAACCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATGGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42043.2|gb|MF777106 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42043.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42043.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42048.2|gb|MF777111 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42048.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42048.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42045.2|gb|MF777108 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42045.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42045.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41511.2|gb|MF777097 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41511.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:41511.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGAAATAACACTTTAAAACAGATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42037.2|gb|MF777100 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42037.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42037.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42040.2|gb|MF777103 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42040.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42040.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAA-------GGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42042.2|gb|MF777105 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42042.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42042.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41506.2|gb|MF777095 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41506.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:41506.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT------------ACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42039.2|gb|MF777102 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42039.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42039.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------AGTACTAA GAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTCACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42046.2|gb|MF777109 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42046.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42046.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGRGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------AGTACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41510.2|gb|MF777096 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41510.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:41510.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAACAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGAGATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCT------GTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42036.2|gb|MF777099 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42036.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42036.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAACAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42041.2|gb|MF777104 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42041.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42041.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------GATACTAA TAACAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43388.2|gb|MF777114 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43388.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:43388.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGARTATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACAAGGGAGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42047.2|gb|MF777110 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42047.2] [isolation-source=plasma from subject F1] [collection-date=Apr-1997] [note=days-post-seroconversion:458 viral-load:1592 CD4-count:328 CD8-count:337 gene:env] HIV-1 viroverse:42047.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACAAGGGAGAAT---------GATACTAA TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------AGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43280.2|gb|MF777130 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43280.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43280.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACAAGGGAGAAT---------GATACTAA TGGCAATCATAATCGT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATC------GGGC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATCTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43420.1|gb|MF777133 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43420.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43420.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATACTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTATACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAAATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCCAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------AGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AACAACACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43272.2|gb|MF777125 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43272.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43272.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAACTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GATACTAC TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACGGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42676.2|gb|MF777121 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42676.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:42676.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTATAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAAA------GGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACAGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43411.1|gb|MF777131 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43411.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43411.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACACATAGCTGAA-AAATTAAGG------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42673.2|gb|MF777119 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42673.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:42673.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCAGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42666.2|gb|MF777115 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42666.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:42666.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAAATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAACAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCA--------------------------------------------------------------- -----TAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCGTTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42674.2|gb|MF777120 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42674.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:42674.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTACAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATAAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43418.1|gb|MF777132 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43418.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43418.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCRCAGACCCTAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------ATTACTAA TAGCAATTATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATAAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTACGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42668.2|gb|MF777116 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42668.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:42668.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------AGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43553.1|gb|MF777134 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43553.1] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43553.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACCAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAGATAGCTGAA-AAATTAAGA------AGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42672.2|gb|MF777118 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42672.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:42672.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCGTACATATA------GGGC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43271.2|gb|MF777124 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43271.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43271.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCGGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43277.2|gb|MF777128 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43277.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43277.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATC------GGGC CAGGGAGCGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGA------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43270.2|gb|MF777123 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43270.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43270.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT TAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATCTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43275.2|gb|MF777126 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43275.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43275.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------AGTACTGA TAACAATCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATAAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTRCAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAAAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42671.2|gb|MF777117 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42671.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:42671.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGCACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAAAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43276.2|gb|MF777127 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43276.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43276.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAAGGGGAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43269.2|gb|MF777122 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43269.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43269.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------AGACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43279.2|gb|MF777129 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43279.2] [isolation-source=plasma from subject F1] [collection-date=Mar-1998] [note=days-post-seroconversion:807 viral-load:4800 CD4-count:374 CD8-count:444 gene:env] HIV-1 viroverse:43279.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGTTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42682.1|gb|MF777139 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42682.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42682.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAT TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAG---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGATGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42680.1|gb|MF777137 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42680.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42680.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAGACAAATAGCTGAA-ACATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42681.1|gb|MF777138 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42681.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42681.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATACTATTAACAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42679.1|gb|MF777136 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42679.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42679.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGAAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAAGAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42690.1|gb|MF777147 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42690.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42690.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCTCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42901.1|gb|MF777153 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42901.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42901.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACGGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTCTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCTCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGCTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTTTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGA------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCAAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42691.1|gb|MF777148 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42691.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42691.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------------AA TAGCAGTCATAATCTT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGACAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCAATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42693.1|gb|MF777150 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42693.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42693.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGAGGGGAACAATACTAAGGGGAAT---------------AA TAGTAATCATAATCTT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42685.1|gb|MF777142 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42685.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42685.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGCGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCTCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAAYGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAGGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATCTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGATGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42692.1|gb|MF777149 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42692.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42692.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAGATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGT---AATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTG---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42687.1|gb|MF777144 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42687.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42687.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTCGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCACATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGAGGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATGAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACCTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAGTTTTTC-T ACTGTAATACAACATCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---GATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACTTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42689.1|gb|MF777146 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42689.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42689.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTATACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATGGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGACGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42902.1|gb|MF777154 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42902.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42902.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAAGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATAAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42694.1|gb|MF777151 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42694.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42694.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGC---CTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATAC--ATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AGATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGGGGGGAGTTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTACTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42695.1|gb|MF777152 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42695.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42695.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGCACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42905.1|gb|MF777155 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42905.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42905.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCTCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAAGAAGTAGGC-AGGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42688.1|gb|MF777145 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42688.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42688.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42906.1|gb|MF777156 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42906.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42906.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACCCATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACAGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42683.1|gb|MF777140 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42683.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42683.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTATAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42684.1|gb|MF777141 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42684.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42684.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGGGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42678.1|gb|MF777135 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42678.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42678.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAC-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAAAAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42686.1|gb|MF777143 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42686.1] [isolation-source=plasma from subject F1] [collection-date=Apr-1999] [note=days-post-seroconversion:1200 viral-load:3200 CD4-count:359 CD8-count:412 gene:env] HIV-1 viroverse:42686.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCTCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTTTACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---AAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42798.1|gb|MF777160 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42798.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42798.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTGCCCACGGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCGCTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------------AA TAGCACTCATAATCTT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAGTGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCCGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA CAATGGAATAACACTTTAAAACGAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAATAGTATTTGG------TAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAATTGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGATAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42799.1|gb|MF777161 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42799.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42799.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACCCATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATTCTAT TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGCTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTTTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAACTGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43026.1|gb|MF777177 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43026.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43026.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------AGTACTAC TAACAATTATAATCGT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAGTGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGCACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCTTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAGCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATGGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42808.1|gb|MF777170 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42808.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42808.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCTAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAGTAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAAATAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCRTACCGATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCAATACATCACCACTGTTCAATAGTACTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAGATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCAAAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42797.1|gb|MF777159 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42797.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42797.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGACGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGRTTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------------AA TAGCAGTCATAATCTT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGACAAAGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAACAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACGTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAGTAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCTTCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGATAATAACAGATCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42806.1|gb|MF777168 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42806.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42806.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCTAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCGGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCTCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAGTGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAACGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACGTTAAAACAAATAGCTGGA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAGTAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCTTCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGATAATAACAGATCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAARGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43028.1|gb|MF777179 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43028.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43028.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAGTGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGCACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGGGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------CAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGGTCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43025.1|gb|MF777176 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43025.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43025.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAAATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGGACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATCATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCGTAAATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACGTTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42796.1|gb|MF777158 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42796.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42796.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAACAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGCGTAAAATTAACCCCACTCTGTGTT ACTTTAACTTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAGAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAACGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGAGAA---GAA-TTAAATGGCACTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATGACGGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43023.1|gb|MF777174 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43023.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43023.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACCCATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGTACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAAGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACGCAGTTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTGGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------TAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAGGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42800.1|gb|MF777162 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42800.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42800.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGG-CTTTTTTATAAACTTGATGTAGTACCACTA-GAGAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAC---------------AATACTGAA------------ ---AATGGCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43021.1|gb|MF777172 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43021.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43021.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAAGGGGAT---------AGTACTAA TAGCACCCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATAAAAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGCGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAC---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGTCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAACAATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42795.1|gb|MF777157 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42795.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42795.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAGTGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACACTATYGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAG--------------------------------------------------CATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAACTGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTGATAATAACAGATCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42807.1|gb|MF777169 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42807.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42807.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------GGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGAA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTCGATGTAGTACCACTA-GATAGTGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCAAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTAGTAATAACAGATCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43022.1|gb|MF777173 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43022.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43022.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAGTGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCAAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACARATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGTTATTAACAAGAGATGGTGGTGGTAGTAATAACAGATCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42802.1|gb|MF777164 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42802.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42802.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATCATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTAGTAATAACAGATCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAGTATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42803.1|gb|MF777165 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42803.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42803.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCAAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAATAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTAGTAATAACAGATCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42805.1|gb|MF777167 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42805.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42805.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCACAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAAC-ATACTAAGGGGGAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAGAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT--CACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGA--AAATTAAGA------GAA-AA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG------AGT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAGATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGG--AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCTTCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43024.1|gb|MF777175 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43024.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43024.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG------AAC---------------AATACTGGG------------ ---AATAGCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAAGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42801.1|gb|MF777163 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42801.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42801.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCAGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GATACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGCTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAACGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAC---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43020.1|gb|MF777171 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43020.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43020.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTTTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATACA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAGG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATACTGGG------------ ---AATAGCACTGGGGGA---GAG-TTAAATGGCCCTGGA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43027.1|gb|MF777178 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43027.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:43027.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTTTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATACA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAGG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAAACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATACTGGG------------ ---AATAGCACTGGGGGA---GAG-TTAAATGGCCCTGGA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42804.1|gb|MF777166 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42804.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2000] [note=days-post-seroconversion:1570 viral-load:3200 CD4-count:282 CD8-count:444 gene:env] HIV-1 viroverse:42804.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAGG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGCAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGATGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44674.1|gb|MF777198 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44674.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44674.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAGGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGGACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-AATAATGAT-------- -------------AGTAGGAGC---------TATAGATTGTTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAGGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCTCTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGATGATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATTTAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44663.1|gb|MF777187 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44663.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44663.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAATCTTTCGGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AAAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------GAC---------------ACTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAACGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44670.1|gb|MF777194 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44670.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44670.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTGG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAAAGATAAGGTACACAAAGAATATGGA-CTT--------------------------------------------- ---------------------------------------------------------------T-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCTCTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCRGAGA-GAAAAAAGA >gnl|viroverse|44656.1|gb|MF777180 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44656.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44656.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTC ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT------------------------------ACTGCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGCGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44661.1|gb|MF777185 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44661.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44661.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGAGAT---------AGTACTAA TAGCACTCAT------------------------------------------GCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAGTGGT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTCCAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAAAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAGACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAGTAGTACTTGG------AAT---------------AATACTGGG------------ ---AATATCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATGACAGCTCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44671.1|gb|MF777195 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44671.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44671.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGCAT---------AGTACTAA TAACACTCATAATTAT------------------------------ACT------TGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAGTGAT-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCTCTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44668.1|gb|MF777192 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44668.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44668.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTC ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCATAATTAT------------------------------ACTACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAGAATGAT-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGCGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACGCTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAATGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44662.1|gb|MF777186 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44662.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44662.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------------AA TAGCAGTCATAATCTT------------------------------ACTGCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAGATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAGAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACGA---TTT------GGGAATAAACCAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGATAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44665.1|gb|MF777189 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44665.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44665.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAGGATTTGTCAGAACTTCTTG------------GGRTGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCAGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTACTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAGTTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGAAT---------------AA TGGCACTCATAATCTT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGGGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCGATACATCACGACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATATCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44672.1|gb|MF777196 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44672.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44672.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAACAATACTAAAGGGGAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAGCATGAT-------- -------------AATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAATAACAATACAAGAAGGAGCATACATATA------GGGC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAC---------------AATACTGGG------------ ---AAAAGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAACTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44659.1|gb|MF777183 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44659.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44659.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GATACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGG------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAAATGAT-------- -------------AATAGGAGC---------TATAGATTAATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AAAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44660.1|gb|MF777184 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44660.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44660.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GATACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGG------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAAATGAT-------- -------------AATAGGAGC---------TATAGATTAATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AAAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44664.1|gb|MF777188 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44664.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44664.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GATACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGG------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAAATGAT-------- -------------AATAGGAGC---------TATAGATTAATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGGTTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44673.1|gb|MF777197 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44673.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44673.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GATACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGG------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAAATGAT-------- -------------AATAGGAGC---------TATAGATTAATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATG------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44658.1|gb|MF777182 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44658.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44658.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACCTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GATACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGG------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAAATGAT-------- -------------AATAGGAGC---------TATAGATTAATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCAGACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44675.1|gb|MF777199 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44675.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44675.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAGGGTACACAAAGAATATGGG-CTTTTTTATAAACTTGATGTAGTACCACTA-GAGACTGAT-------- -------------AATAGGAGC---------GATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCAGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCGATACATCACGACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATATCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGTTATTAACAAGAGATGGTGGTGGTGGTAATGACAGCTCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAGGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44657.1|gb|MF777181 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44657.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44657.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTAG TAGCAATTATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAAAGATAAGGTACACAAAGAATATGGA-CTTTTTTGTAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTAGTTGG------AGT---------------AATACTGGG------------ ---AATAACACTGGAGAA---GAA-TTAACTGGCCCTGAA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAACATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGCAACAACGGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44667.1|gb|MF777191 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44667.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44667.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT GCTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAAAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCCGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAGAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTARTTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATT-TTC-C ACTGTAGTACAACACCACTGTTCAATAGTAGGTGG------AGT---------------AATAATGGG------------ ---AATAACACTGGAGAA---GAA-TTAACTGGCCCTG------------------------------------------ ----------AAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATCACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44666.1|gb|MF777190 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44666.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44666.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACGGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGGGGAT---------AGGACTAA TAGCACTCATAATGAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGG-CTTTTTTATAAACTTGATGTAGTACCACTA-GAGAATGAT-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAACGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACGACTGTTCAATAGTACTTGG------TAC---------------AATACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCTTCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGATAATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44669.1|gb|MF777193 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44669.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2001] [note=days-post-seroconversion:1934 viral-load:1100 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44669.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGGCAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTCTATGGGATCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAACAATACTAAGGGGGAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACAGCACTGTTCAGTAGTATTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATCAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGATAATGACAGCTCCGAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43739.1|gb|MF777217 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43739.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43739.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAGAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AAGGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGCTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG------AGT---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAA-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43756.1|gb|MF777220 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43756.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43756.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTAGTAATAGCAGATCCGACAAT------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43674.1|gb|MF777201 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43674.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43674.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGGTGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGWAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43704.1|gb|MF777203 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43704.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43704.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGGTGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43719.1|gb|MF777206 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43719.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43719.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGGTGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43720.1|gb|MF777207 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43720.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43720.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAAATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GGCAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACARTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCTGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGGAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43758.1|gb|MF777222 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43758.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43758.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACYACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCTGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGGAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43731.1|gb|MF777213 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43731.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43731.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTCTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGG >gnl|viroverse|43754.1|gb|MF777219 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43754.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43754.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGAGGAAT---------GAAACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------GTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGACAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATCAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACCTTAACACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACGACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATATCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATCACAGGGCTACTATTAGCAAGAGATGGTGGTGGT---AATAACAGATCCGAC---------- -----------------------------------GAGATCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43705.1|gb|MF777204 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43705.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43705.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTACGGGGAAT---------ATTACTAA GAGCAATCATACTCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-AATAATGAT-------- -------------AATAGGAGC---------TATAGATTGTTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTACAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACGACTGTTCAATAGTACTTGG------AAC---------------AATACTGAA------------ ---AATGGCATTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43725.1|gb|MF777211 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43725.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43725.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GATACTAG TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGG------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGACTTTTTTTATAAACTTGATGTAGTACCACTA-GAAAATGAT-------- -------------AATAGGAGC---------TATAGATTAATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATAGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAACAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43718.1|gb|MF777205 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43718.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43718.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG CGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAACAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGCAT---------AGTACTAA TAACACTCAT------------------------------------------GCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACCCTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43753.1|gb|MF777218 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43753.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43753.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGAGAAT---------GAGACTAT TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATATAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43723.1|gb|MF777210 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43723.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43723.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAATCATACTAAGGGGAAT---------------AA TGGCACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43722.1|gb|MF777209 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43722.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43722.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGACCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TGGCACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGATAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATAACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCT----TTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43675.1|gb|MF777202 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43675.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43675.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------RGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TGGCACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGATAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATAACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43721.1|gb|MF777208 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43721.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43721.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TGGCACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGATAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATAACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43735.1|gb|MF777215 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43735.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43735.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TGGCACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGATAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATAACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43757.1|gb|MF777221 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43757.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43757.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TGGCACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATAACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43733.1|gb|MF777214 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43733.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43733.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAATCATACTAAGGGGAAT---------------AA TGGCACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43737.1|gb|MF777216 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43737.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43737.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAATCATGCTAAGGGGAAT---------------AA TGGCACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43671.1|gb|MF777200 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43671.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43671.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGAGAAT---------GAGACTAT TAGCAATAATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCRATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43728.1|gb|MF777212 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43728.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2002] [note=days-post-seroconversion:2297 viral-load:7400 CD4-count:168 CD8-count:292 gene:env] HIV-1 viroverse:43728.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTGA TAGCAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGTAATTAACTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45449.1|gb|MF777242 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45449.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45449.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAT GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTCCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTATACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTAAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTACTTGG------AGT---------------ATTACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGAT---GGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45448.1|gb|MF777241 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45448.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45448.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCAT------------------------------------------GCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGATA------- -----ATAATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGGAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGGATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45447.1|gb|MF777240 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45447.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45447.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT------------------------------------GCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATAATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGYCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTACTTGG------AGT---------------ATTACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGAT---GGTGGTGGTAATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45097.1|gb|MF777235 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45097.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45097.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCATG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTAG TAACAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAGGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------CATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGGATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAACACATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45102.1|gb|MF777237 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45102.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45102.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACGCATGCCTG CGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAACAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTCCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACGTT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAGAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTATTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAG---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGATATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACT---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44991.1|gb|MF777233 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44991.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44991.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGGGGGAT---------AGTACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGAT-------- -------CATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGATAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTTAATAGTACTTGG------AGT---------------ATTACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45101.1|gb|MF777236 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45101.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45101.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAT GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTCCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTATACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTAAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTACTTGG------AGT---------------ATTACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44990.1|gb|MF777232 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44990.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44990.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGGACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTCTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGACCAAAGCCTAAAACCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TGACACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAGATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AAGGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTGGTCATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAACCAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44989.1|gb|MF777231 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44989.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44989.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTCCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAG---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGACGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44988.1|gb|MF777230 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44988.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44988.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCAT------------------------------------------GCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AAGAACACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAACTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAAGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45193.1|gb|MF777239 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45193.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45193.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCGACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTATT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAAAGATAAGGTATACAAAGCATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAATAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TATTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTGGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATTCCTATA------GGAC CAGGGAGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAGAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCGATACAACACGACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATATCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTACTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGRGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44987.1|gb|MF777229 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44987.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44987.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGGGGGAT---------AGTACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GGCAGTGAT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAACACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAGCAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44986.1|gb|MF777228 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44986.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44986.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGGACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGACCAAAGCCTAAAACCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TGACACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAGATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGCT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGTAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATGACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAACCAA TAATCTTTCGGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44985.1|gb|MF777227 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44985.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44985.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAG-GCTGCAGAGGACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTCTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAATATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGACCAAAGCCTAAAACCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TAACACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAGATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGTGAT-------- -------AAGGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTCATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAACCAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44984.1|gb|MF777226 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44984.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44984.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAATCTATTATGGGGTACCTGTGTGGAAAGAT GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTAAGGGGAAT---------------AA TGACACTCATAATCCT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAATACCACTA-GACAATGCT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTGAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAGATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGGATAACACTTTAAAACAAATAGTTAAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGACCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGGATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44983.1|gb|MF777225 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44983.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44983.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------GCCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATGAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGCT-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTGAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAGATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGGATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGCCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAACATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45192.1|gb|MF777238 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45192.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45192.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTAG TAGAAATCATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAAAGATAAGGTATACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATAAT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACGGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAGTCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGGATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATATTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTGGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAACACATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44982.1|gb|MF777224 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44982.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44982.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------GCCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTCAATTAT---------------------------------GCTACTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAACAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCGATACATCACGACTGTTCAATAGTACTTGG------TAC---------------AATCTTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTAGTAATAGCAAATCCGACAAT------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAAATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTR---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44981.1|gb|MF777223 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44981.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:44981.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGGGGGAT---------AGTACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAATGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACGA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAACACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGT------AATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45096.1|gb|MF777234 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45096.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2003] [note=days-post-seroconversion:2663 viral-load:80 CD4-count:182 CD8-count:474 gene:env] HIV-1 viroverse:45096.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCGGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG CGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCTTAATTAT---------------------------------GCTCCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAGCAT----------- ----------GAAAATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAG---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAACAGATCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45588.1|gb|MF777248 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45588.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45588.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTACGGGGAAT---------ATTACTAA GAGCAATCATACTCAG---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAA CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGYACAAATGTCAGTACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTGGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGAAGCATACCTATA------GGAC CAGGGAGAGCTGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TACTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATGTCACGGGGGGA---GAG-TTAAAGGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAGCAGCTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45589.1|gb|MF777249 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45589.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45589.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGGAT---------AATACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAAGGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TACTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATGTCACGGGGGGA---GAG-TTAAAGGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAGCAGCTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45595.1|gb|MF777255 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45595.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45595.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGGAT---------AATACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAAGGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACRGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TACTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTACTTGG------AAT---------------AATACTGGG------------ ---AATGTCACGGGGGGA---GAG-TTAAAGGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAGCAGCTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45601.1|gb|MF777261 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45601.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45601.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGGATTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG CGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAACAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACTGAGGGGAAT---------------AA TAGCACTCATAAT---------------------------------------CCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAAGGGT-------- -------AATGATACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTCCAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACCTTAAAACAAATAGTTGGA-AAATTAAGG------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45593.1|gb|MF777253 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45593.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45593.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGAGGGAT---------AGTACTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGRAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGGATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGCCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATCACAGGACTGCTATTAGCAAGAGATGGTGGTAGTGGTAATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45583.1|gb|MF777243 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45583.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45583.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAGTACTAGGGGGAAT---------GATACTAG TGGCAATCGTACTGAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACAAAGAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACCTTAAAACAAATAGTTGGA-AAATTAAGG------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45584.1|gb|MF777244 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45584.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45584.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGAAAT---------AGTACTAA TAGCACTCGTAATGAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATYTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTT-T ACTGTAGTACAACACCACTGTTTAATAGTACTTGG------AGT---------------ATTACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---ACTAATAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45585.1|gb|MF777245 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45585.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45585.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAAGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGAGGGAT---------AGTACTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATAATGGG------------ ---AGTATCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45586.1|gb|MF777246 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45586.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45586.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAARATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGAGGGAT---------AGTACTAA TAGCACCAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTAAA-AAATTAAGA------GAACAA---TTT------GTGGATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AAAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAAACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45587.1|gb|MF777247 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45587.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45587.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAGATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAACTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGGGAAT---------AGTACTAA TAGCACTCAT------------------------------------------GCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCCAG CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGAACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATATA------GGAC CAGGGAGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGGATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATAATGGG------------ ---AGTATCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45591.1|gb|MF777251 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45591.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45591.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTAGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAACGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGGGGGAT---------AGTACTAA TAGCACTTATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGGGATA------- -----ATAATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTGGGAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACATCACTGTTCAATAGTACTTGG------AGT---------------ATTACTGAA------------ ---AATAGCACTGGGGAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTACGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45590.1|gb|MF777250 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45590.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45590.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCARAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAAGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAGTACTAGGGGGAAT---------GATACTAG TGGCAATCGTACTGAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAAAAGATAAA--------GAAAAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTATACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGCCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGGTCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGGCATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAAATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTAAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAT---------------AATAATGGG------------ ---AGTATCACTGGGGGA---AAG-TTAAATGACCCTAAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTAAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAAAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45592.1|gb|MF777252 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45592.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45592.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAACATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGGAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTACGGGGCAT---------AGTACTAA TAGCACTTATAATTAT------------------------------------ACTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAAGGTCACCACAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGGT-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGGACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTTTAGCAGAAGAAGAGATAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTG-----------------------------------------------------AATACATATA------GGAC CAGGGAAAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTGGAACA AAATGGAATAACGCTTTAAAACAAATAGCTGAA-AAATTAAGA------GAACAA---TTT------GTGGATAAAACAA TCGTCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCAATACATCACCACTGTTCAATAGTACTTGG------TAT---------------AATACTGAG------------ ---AATAACACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATTGCAGGACCAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45594.1|gb|MF777254 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45594.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45594.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTAG TAGAAATCATACTTAT------------------------------------GCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTATACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGGAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACCTTAAAACAAATAGTTGGA-AAATTAAGG------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTCAATAGTACTTGG------AGT---------------ATTACTGAA------------ ---AATAGCACTGGGGAA---GAG-TCAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAGGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGACGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAGGGACAATTGGRGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45596.1|gb|MF777256 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45596.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45596.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGAGGGAT---------AGTACTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAGGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACRGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAGTACAACACCACTGTTTAATAGTACTTGG------AGT---------------ATTACTGAG------------ ---AATAGCACTGGGGAA---GAG-TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTCTTAACAAGAGATGGTGGTGGT---CATAATAGATCCAAC---------- -----------------------------------GAGACCTTTAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45597.1|gb|MF777257 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45597.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45597.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAACAATACTACGGGGAAT---------ATTACTAA GAGCAATCATACTCAG---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAAGCTGTAGTCATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACCTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45599.1|gb|MF777259 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45599.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45599.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAACAATACTACGGGGAAT---------ATTACTAA GAGCAATCATACTCAG---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCGTTTATGCAGCAGGAGAGATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACCTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45602.1|gb|MF777262 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45602.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45602.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTAGGGATATTGATGATCTGTAAT-GCGGCAGAAGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAACAATACTACGGGGAAT---------ATTACTAA GAACAATCATACTCAG---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTRCACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCG-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAAGGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACCTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45598.1|gb|MF777258 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45598.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45598.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACTTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAACAGTACTACGGGGAAT---------ATTACTAA GAGCAATCATACTCAG---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGTCATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAGCACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCACCACTATTCAACAGTACTTGG------AAT---------------AATAATGGG------------ ---AGCATCACTGGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45600.1|gb|MF777260 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45600.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2004] [note=days-post-seroconversion:3025 viral-load:10000 CD4-count:173 CD8-count:672 gene:env] HIV-1 viroverse:45600.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCCTGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGAGGAACAATACTACGGGGAAT---------ATTACTAA GAGCAATCATACCCAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GAGCATGAA-------- -------------AATGGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGTGATTCTGAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTGGAGCA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AGTCTTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGCAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45054.1|gb|MF777265 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45054.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45054.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGACTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGAGAACAATACTAGGAGGAAT---------GAAACTAG TAGCAATCAGACTTAT---------------------------------CCCGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAATTGC TGCTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCTGAAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTGGAGAA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACAGCACCACTGTTCAATAGTACTTGG------TAC---------------AGTCTTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAAGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTAATAAT---AGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAGGGACAATTGGAGA AGTGAATTATATAAATACAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45198.1|gb|MF777279 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45198.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45198.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGAGAACAATACTAGGAGGAAT---------GAAACTAG TAGCAATCAGACTTAT---------------------------------CCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAAAGGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCCATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTACAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCGATACATCGCGACTGTTCAATAGTATTTGG------AAC---------------ATTAGTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATAACTCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGTAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAAACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45057.1|gb|MF777268 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45057.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45057.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGAGAACAATACTAGGAGGAAT---------GAAACTAG TAGCAATCAGACTTAT---------------------------------CCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAGG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTCTTC-T ACTGTAATACATCACCACTGTTCAACAGTACTTGG------AAC---------------ATTAATGGG------------ ---AGTATCACTGGGGGA---GAG-TTAAATGGCACTGGA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAGTAAGAGATGGTGGTGGTGATAATAGCAGCTCCAAC---------- -----------------------------------GAAACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45058.2|gb|MF777269 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45058.2] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45058.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGGACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAAGGAGAAT---------AAGACTAG TAGCAATAATACTTAT---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAGG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAACAGTACTTGG------AAC---------------ATTAATGGG------------ ---AGTATCACTGGGGGA---GAG-TTAAATGGCACTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAACTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45059.1|gb|MF777270 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45059.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45059.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGGACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAACAATAATACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGGAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTCATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAACAGTACTTGG------AAC---------------ATTAATGGG------------ ---AGTATCACTGGGGGA---GAG-TTAAATGGCACTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45060.1|gb|MF777271 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45060.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45060.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTGAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAACAGTACTACGGGGAAT---------ACTACTAA GAGCAATCATACTCAG---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTATAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAACAGTACTTGG------AAC---------------ATTAATGGG------------ ---AGTATCACTGGGGGA---GAG-TTAAATGGCACTGGA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAGTAAGAGATGGTGGTGGTGATAATAGCAGCTCCAAC---------- -----------------------------------GAAACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45063.2|gb|MF777274 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45063.2] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45063.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAAGATTGTCAGAACTGCTTG------------GGATGGGCC------------ACCTTGYT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTGAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAACAGTACTACGGGGAAT---------ACTACTAA GAGCAATCATACTCAG---------------------------------ACTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAACAGTACTTGG------AAC---------------ATTAATGGG------------ ---AGTATCACTGGGGGA---GAG-TTAAATGGCACTGGA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAGTAAGAGATGGTGGTGGTGATAATAGCAGCTCCAAC---------- -----------------------------------GAAACCTTCAGACCTATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45053.1|gb|MF777264 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45053.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45053.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TGGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGAGAACTATACTAATGGGAAT---------AGTACTAA TAGAACTCTTAATGAT---------------------------------GCTACTTGGGAA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAGG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTGGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAAAGGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCCATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTACAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCACACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAACACTGGG----------TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAGCAGTTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45064.1|gb|MF777275 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45064.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45064.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGGACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACTATACTAATGGGAAT---------AGTACTAA TAGAACTCTTAATGAT---------------------------------GCTACTTGGGAA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAGG CATAAGAGATAAGGAGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTGCAATGCACACATGGAATTAAGCCAGTGGTGTCAACTCAATTAC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTGGAGAA AAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAACAGATCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45196.1|gb|MF777278 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45196.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45196.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAGTACTGGGGGGAAT---------GATACTAG TGGCAATCGTACTGAT---------------------------------GCTGCTTGGGGA------------------- ---------------------ATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-TACGATGAT-------- -------AAGGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCGGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAGGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTACAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCGATACATCGCGACTGTTCAATAGTATTTGG------AAC---------------ATTAGTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATAACTCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGACTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45061.1|gb|MF777272 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45061.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45061.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAACGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAAGACTATGAGGGAT---------AGTATTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-TACAATGAA-------- -------AATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGGACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGGAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAATAA TAATCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------AGTACTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAGCAGTTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45195.1|gb|MF777277 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45195.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45195.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------ATAGGGGGGAACAATACTATAAGGGAT---------AGTACTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAACCAA TAATCTTTCGGAACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCATAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------AGTACTGAG------------ ---AACAGCACTGGGAAA---GAG-ATAAATGGCTCTGAG---------------------------CCTATCACACTCC AGTGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTCTTAACAAGAGATGGTGGTGGT---CATAATAGATCCAAC---------- -----------------------------------GAGACCTTTAGACCTATAGGAGGAGAGATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45062.1|gb|MF777273 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45062.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45062.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGAGGAACAATACTAGGAAGGAT---------AGTTCTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACACGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGGAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------AGTACTGAG------------ ---AATGGCACTGGGAAA---GAG-TTAAATGGCTCTGAG---------------------------CCTATCACACTCC AGTGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAGTAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45200.1|gb|MF777281 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45200.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45200.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTACTATGGGGTACCTGTGTGGAAAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGAGGAACAATACTAGGAGGGAT---------ATTACTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGGAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------AGTACTGAG------------ ---AATGGCACTGGGAAA---GAG-TTAAATGGCTCTGAG---------------------------CCTATCACACTCC AGTGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTACATCAAAAATTACAGGGCTGCTATTAGTAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45199.1|gb|MF777280 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45199.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45199.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAAGGGGGAACGATACTAGGAGGGGT---------AGTACTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAATAA TAGTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------AGTACTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGGCTCTGAG---------------------------CCTATCACACTCC AGTGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACAGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45056.1|gb|MF777267 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45056.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45056.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGAGGGAT---------AGTAATAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATCAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTGAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------AGTACTGAG------------ ---AGTAGCACTGGGAAA---GAG-TTAAATGGCTCTGAG---------------------------CCTATCACACTCC AGTGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45194.1|gb|MF777276 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45194.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45194.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGAGGGAT---------AGTAATAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATCAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTGAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTGATACATCACCACTGTTCAATAGTATTTGG------AAC---------------AGTACTGAG------------ ---AGTAGCACTGGGAAA---GAG-TTAAATGGCTCTGAG---------------------------CCTATCACACTCC AGTGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45052.1|gb|MF777263 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45052.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45052.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTCTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------ATAGGGGGGAACAATACTATAAGGGAT---------AGTACTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTACAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCGATACATCACGACTGTTCAATAGTATTTGG------AAC---------------ATTAGTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATAACTCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATTACAGGGCTGCTATTAGTAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45055.1|gb|MF777266 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45055.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45055.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCGGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------ATAGGGGGGAACAATACTATAAGGGAT---------AGTACTAA TAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGCACACATGGAATTAAGCCAGTGGTGTCAACTCAATTAC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGTAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTAAA-AAATTAAGA------GAACAA---TTT------GTGGGTAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAACAGTACTTGG------AAC---------------AGTACTGGG------------ ---AATATCATTAGGGGA---GAG-TTAAATGGCCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATTACAGGGCTGCTATTAGTAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45247.1|gb|MF777282 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45247.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2005] [note=days-post-seroconversion:3389 viral-load:8600 CD4-count:127 CD8-count:478 gene:env] HIV-1 viroverse:45247.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGGGGGAT---------AATATTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAGG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA GAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAAGAAAACAA TAATCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAACACTGGG----------TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTGGGC-AAGGCAATGTATGCCCCTCCCATTGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---AATAATAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAGTATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44912.1|gb|MF777301 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44912.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44912.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGTT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGAGGGAT---------AGTAATAA GAGCACTAATAAT------------------------------------------------------------------- ---------------------TTAGAAGATCAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACARGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGGGCCGTTTATACAGCGGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------AAACAA---TTT------GTGAATAAAACAA TAGCCTTTCAGAGCTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCAATACAACACGACTGTTCAATAGTACTTGG------AAT---------------AAT---GGG------------ ---AGTATCACTGGGGGA---GAT-TTCAATGACCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44909.1|gb|MF777298 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44909.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44909.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCGGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGCACACATGGAATTAAGCCAGTGGTGTCAACTCAATTAC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGGGCCGTTTATACAGCGGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA GAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGACTTTCAGAGCTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCACACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAAAACTGGG----------TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44896.1|gb|MF777285 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44896.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44896.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCCTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATACGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAAGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGAATCATACGGAGGGGAAT---------------AA AAGCACTCATAAT---------------------------------------CCTTTGGG-------------------- --------------------AATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGAAAG CATAAGAGATAGGGTGCACAAAGAATATGGA-CTTTTCTATAAACTTGATGTAGTACCACTA-GACGGGGAT-------- ----AAAAATGATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGCACACATGGAATTAAGCCAGTGGTGTCAACTCAATTAC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGGGCCGTTTATACAGCGGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA GAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGACTTTCAGAGCTCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCACACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAAAACTGGG----------TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAGTAAGAGATGGTGGT------AATAACAGTTCCAACGAGACA---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44897.1|gb|MF777286 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44897.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44897.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCGGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGG---GAATCATACTGAGGGGAAT---------------AA TAGCACTCATAAT---------------------------------------CCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGAAAG CGTAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTCTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGCACACATGGAATTAAGCCAGTGGTGTCAACTCAATTAT TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGGGCCGTTTATACAGCGGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA GAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGACTTTCAGAGCTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACCACACCACTGTTCAATAGTACTTGG------TAC---------------AATCTTGAG------------ ---AATAAAACTGGG----------TTAAATGGCTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGT-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44907.1|gb|MF777296 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44907.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44907.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAT GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACYCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCACTTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGARTCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGGGCCGTTTATACAGCGGGGGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGACTTTCAGAGCTCCTCA---GGAGGAGACCCAGAACTTGAAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTT-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TTAAATAGCCATGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTAATAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44910.1|gb|MF777299 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44910.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44910.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAT GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTATGAGG-AT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGGGCCGTTTATACAGCGGGGGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGACTTTCAGAGCTCCTCA---GGAGGAGACCCAGAACTTGAAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTT-T ACTGTAATACCTCACCACTGTTCAATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TTAAATAGCCATGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTAATAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44898.1|gb|MF777287 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44898.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44898.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAAAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGATAGTAGTTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAATAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGCCTTTCAGAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCATCACTGTTCAACAGTACTTGG------AGC---------------ATTAAGGGG------------ ---AGTGCCACTGGGGGA---GAG-TCAAATGACCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTGATAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44976.1|gb|MF777302 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44976.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44976.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAAAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAGTTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAATAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGCCTTTCAGAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCATCACTGTTCAACAGTACTTGG------AGC---------------ATTAAGGGG------------ ---AGTGCCACTGGGGGA---GAG-TCAAATGACCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCCCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAATAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGGCCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44902.1|gb|MF777291 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44902.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44902.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAAAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATAAAAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAGTTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAATAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGCCTTTCAGAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCATCACTGTTCAACAGTACTTGG------AGC---------------ATTAAGGGG------------ ---AGTGCCACTGGGGGA---GAG-TCAAATGACCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAATAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44908.1|gb|MF777297 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44908.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44908.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAAAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCACTTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGCGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAATAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGCCTTTCAGAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCATCACTGTTCAACAGTACTTGG------AGC---------------ATTAAGGGG------------ ---AGTGCCACTGGGGGA---GAG-TCAAATGACCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAATAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATATTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44899.1|gb|MF777288 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44899.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44899.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAAAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCWCAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAATAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGCCTTTCAGAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCATCACTGTTCAACAGTACTTGG------AGC---------------ATTAAGGGG------------ ---AGTGCCACTGGGGGA---GAG-TCAAATGACCCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAATAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44895.1|gb|MF777284 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44895.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44895.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAAGGACTCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACAGTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44906.1|gb|MF777295 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44906.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44906.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------GCCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTGGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGRT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGCACACATGGAATTAAGCCAGTGGTGTCAACTCAATTAC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCGTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAAAAA TAATCTTTAATGAATCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCAATACATCACGACTGTTCAATAGTATTTGG------AAC---------------ATTAGTGGG------------ ---AATAGCACTGGGGAA---GAG-TTAAATAAATCTGAA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAACAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44904.1|gb|MF777293 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44904.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44904.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCAAAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGAGGGGAACAATACTAGGGGGAAT---------GAAACTGG TAACAATCATAATTAT------------------------------------ACTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAGG CATAAGAGATAAGGTGCACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGCAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCGATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TCAAATGGCCCTGCA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44905.1|gb|MF777294 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44905.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44905.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAT GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGTGGGAAACAATACTAGGGGGAAT---------GAAACTGG TAACAATCATAATTAT------------------------------------ACTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAGG CATAAGAGATAAGGTGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGGGAT-------- ----------AATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGGCCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCCAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGCAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCGATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TCAAATGGCCCTGCA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44903.1|gb|MF777292 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44903.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44903.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAACTATACTAATGGGGAT---------AATACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGGGAT-------- ----------AATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGGCCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCCAGAACA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGCAATACACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCGATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TCAAATGGCCCTGCA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATTGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCRACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44894.1|gb|MF777283 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44894.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44894.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGATCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAACTATACTAATGGGGAT---------AATACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCAAAAAGAATATGCACTTTTTTTATAAACTTGATGTAGTACCACTA-GACAGGGAT-------- ----------AATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGGCCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCCAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGCAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCGATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TCAAATGGCCCTGCA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44900.1|gb|MF777289 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44900.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44900.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAAATATACTAATGGGGAT---------AATACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GACAGGGAT-------- ----------AATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGGCCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCCAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGCAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCGATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TCAAATGGCCCTGCA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44901.1|gb|MF777290 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44901.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44901.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAACTATACTAATGGGGAT---------AATACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCAAAAAGAATATGCACTTTTTTTATAAACTTGATGTAGTACCACTA-GACAGGGAT-------- ----------AATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCTCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGGCCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCCAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGCAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCGATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TCAAATGGCCCTGCA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44911.1|gb|MF777300 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44911.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2006] [note=days-post-seroconversion:3754 viral-load:17000 CD4-count:295 CD8-count:816 gene:env] HIV-1 viroverse:44911.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGAAACTATACTAATGGGGAT---------AATACTAA TAGCACTCATAAT------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACCGCAAG CATAAGAGATAAGGTGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GACAGGGAT-------- ----------AATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGGCCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCCAGAGCA CAATGGAATACCACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GTGAATAAAACAA TAGTCTTTCAGAACTCCTCA---GGAGGAGATCCAGAACTTGCAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCGATAGTACTTGG------AAC---------------ATTACTAGG------------ ---AACATCACTAGGGGA---GAG-TCAAATGGCCCTGCA---------------------------AACATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44604.1|gb|MF777321 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44604.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44604.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGAGAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCTCTGAT------------------GTAGGGGGGAACAATACTAATGAGGAT---------AATACTAA TAGCACTCATAAC------------------------------------------------------------------- ---------------------TTAGAAGATAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAGTTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATGTATGCAGCAGGAGGAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---GATAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTATGGGAGGAGATATGAAGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44505.1|gb|MF777304 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44505.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44505.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACT-------------------------------------------------------CCACACATGCCTG CGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TGGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGG---GAACAATACTAGGAGGAAT---------GAAACTGG TAGCAATCAGACTCAT---------------------------------CCTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAGG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTGGAGAA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAAAAA TAATCTTTAATGAATCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGAGAATTTTTC-T ACTGCAATACATCACGACTGTTCAATAGTATTTGG------AAC---------------ATTAGTGGG------------ ---AACAGCACTGGGGAA---AAG-TTAAATGAATCTGGA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44597.1|gb|MF777314 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44597.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44597.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATCTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGACATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TGGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGG---GAACAATACTAGGAGGAAT---------GAAACTGG TAGCAATCAGACTCAT---------------------------------CCTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAGG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGGCCCAACAACAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTGGAGAA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAAAAA TAATCTTTAATGAATCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCGATACATCACCACTGTTCAACAGTACTTGG------AAC---------------ATTAATGGG------------ ---AGTATCACTGGGGGA---GAG-TTAAATGGCACTGGA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44598.1|gb|MF777315 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44598.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44598.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TGGAGCAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGG---GAACAATACTAGGAGGAAT---------GAAACTGG TAGCAATCAGACTCAT---------------------------------CCTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAGG CATAAGAGATAAGGTACACAAAGAATATGGA-CTTTTTTATAAACTTGATGTAGTATCACTA-GATAATGAT-------- -------------ACTAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAATAATACAAGAAGGAGCATACATCTA------GGAC CAGGGGGAGCCTTTTATACAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTGGAGAA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAAAAA TAATCTTTAATGAATCCTCA---GGAGGAGATCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGCAATACATCACCACTGTTCAACAGTACTTGG------AAC---------------ATTAATGGG------------ ---AATATCACTGGGGGA---GAG-TTAAATGGCACTGGA---------------------------AATATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTTAGAGATGGTGGT------AATAGCAGTTCCAACGACACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44507.2|gb|MF777306 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44507.2] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44507.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GGGTGAAGGAG-ATCAGGAAGATCTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGAAAACAATACTAGGAGGAAT---------GAAACTAG TAGCAATCAGACTTAT---------------------------------CCTGCTTTGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATAAAAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGACTAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGACCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTGCAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATGTATGCAGCAGGAGAGATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTGTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTCAGGAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTATATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---GGTAATAACAGATCCAAC---------- -----------------------------------GAAACCTTCAGACCTTGGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44512.1|gb|MF777310 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44512.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44512.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGAG-ATCAGGAAGATCTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCCGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAACGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGGGAACAATACTAGGGGGAAT---------GAAACTAA TAACAATCAGACTTAT---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGAAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-TTTTTTTATAAACTTGATGTAGTACAACTA-GAAGATGAT-------- -------AGGAATAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTGCAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGGAAAGCCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTCAGGAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGTTTCAATTGT-AGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTATATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---GGTAATAACAGATCCAAC---------- -----------------------------------GAAACCTTCAGACCTTGGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44506.1|gb|MF777305 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44506.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44506.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTTGGAATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGGGAAAACAATACTAGGAGGAAT---------GAAACTAG TAGCAATCAGACTTAT---------------------------------CCTGCTTTGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGCAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GAAGATGAT-------- -------AAGACTAATAGGAGC---------TATAGATTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGGC CAGGAAGAACCCTTTATGCAGCAGGAGAAATA------GTAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAGACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGCCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACATCACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACACTACTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44510.1|gb|MF777308 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44510.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44510.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCATG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAAGTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGAAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTGGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGGC CAGGAAGAACCCTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGCCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTGGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44515.1|gb|MF777313 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44515.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44515.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCATG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGAAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCCAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGGC CAGGAAGAACCCTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGCCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTGGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GTAGAGA-GAAAAAAGA >gnl|viroverse|44601.1|gb|MF777318 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44601.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44601.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCATG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGAAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCCAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGGC CAGGAAGAACCCTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGCCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTGGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44600.1|gb|MF777317 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44600.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44600.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCATG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGAAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCCAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGGC CAGGAAGAACCCTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGCCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTGGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44603.1|gb|MF777320 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44603.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44603.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCGGCAGAGGACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCATG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACTGAAAG CATAAGAGATAAGGTGCACAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGAACAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCCAAAATCATAATAGT ACAGCTAAATGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGGC CAGGAAGAACCCTTTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGTAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGCCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGAG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------CCTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTGGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTATGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44599.1|gb|MF777316 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44599.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44599.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTAC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAGATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---GATAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTTGGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44605.1|gb|MF777322 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44605.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44605.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTCCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACGGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAATATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---GATAATAGCAGCTCCAAC---------- -----------------------------------GAGACCTTCAGACCTTGGGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44602.1|gb|MF777319 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44602.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44602.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGTT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCT------------------------------------------------- --------------------------------ATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAGATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAGTTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCACGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45464.1|gb|MF777323 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45464.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:45464.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGTT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAGATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|44504.1|gb|MF777303 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44504.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44504.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAGATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44509.1|gb|MF777307 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44509.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44509.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCACAACTTCTTG------------GGATGGGGC------------ACCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTGGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAGATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44513.1|gb|MF777311 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44513.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44513.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGTT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTGGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTATAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAAATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44511.1|gb|MF777309 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44511.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44511.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGTT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTGGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAGATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAGTACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44514.1|gb|MF777312 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44514.1] [isolation-source=plasma from subject F1] [collection-date=Apr-2007] [note=days-post-seroconversion:4118 viral-load:17000 CD4-count:167 CD8-count:590 gene:env] HIV-1 viroverse:44514.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGATTTGTCAGAACTTCTTG------------GGATGGGGC------------ACCTTGTT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGACAACTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAC GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGGATATGAGACAGAGATGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTAATGGAAAATGTGACAGAAAATTTTAACATGTGGAAGAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTGACCCCACTCTGTGTT ACTTTAAATTGCTCTGAT------------------GTAGGAGGGGACAATACTACGGGGAAT---------ATTACG-- -AGCAATCATACTCAG---------------------------------ACTGCTTGGGG-------------------- --------------------AATAGAAGATAAA--------GGGGAAATA-AAAAACTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAGGTACAAAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCACTA-GATAATAAT-------- -------------ACTAGGAGC---------TATAGACTGATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACATT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTCGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGTAGTCTGGCAGAAGGAGAGGTAGTAATTAGATCT-GAAAATTTCTCAGACAATGCTAAAATCATAATAGT GCAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGCATACCTATA------GGAC CAGGAAGAACCATGTATGCAGCAGGAGAAATA------ATAGGAGATATAAGAAAAGCACATTGCAACATTTCTAAAGCA AAATGGAATAACACTTTAAAACAAATAGTTGGA-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAGTCTTTAACAGATCCTCA---GGAGGAGACCCAGAACTTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACCACTGTTCAATAGTACTTGG---AACAATAATACT---TGGAACATTACTGGG------------ ---AATAGCACTGGGAAA---GAG-TTAAATGACTCTGAA---------------------------ATTATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGGAAGTAGGC-AAGGCAATGTATGCCCCTCCCATCGCAGGACCAAT TAGCTGTGTATCAAATATCACAGGACTGCTATTAGTAAGAGATGGTGGT------AATAGCAGTTCCAACGAGACC---- -----------------------------------GAGATCTTCAGACCTCTAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAATAGCACCCACCAAGGCAAGAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47623.1|gb|MF777329 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47623.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47623.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47622.1|gb|MF777328 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47622.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47622.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47621.1|gb|MF777327 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47621.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47621.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47619.1|gb|MF777326 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47619.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47619.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAARCTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTARTGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47617.1|gb|MF777325 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47617.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47617.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47616.1|gb|MF777324 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47616.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47616.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47653.1|gb|MF777339 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47653.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47653.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGC-CCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGAAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47651.1|gb|MF777338 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47651.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47651.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCGGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47649.1|gb|MF777336 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47649.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47649.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47647.1|gb|MF777335 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47647.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47647.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47644.1|gb|MF777334 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47644.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47644.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47633.1|gb|MF777330 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47633.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47633.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47657.1|gb|MF777342 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47657.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47657.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47660.1|gb|MF777345 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47660.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47660.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47659.1|gb|MF777344 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47659.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47659.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATA--------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47650.1|gb|MF777337 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47650.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47650.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47643.1|gb|MF777333 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47643.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47643.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47639.1|gb|MF777332 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47639.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47639.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47634.1|gb|MF777331 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47634.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47634.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGRCAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47655.1|gb|MF777341 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47655.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47655.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47654.1|gb|MF777340 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47654.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47654.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47658.1|gb|MF777343 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47658.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1998] [note=days-post-seroconversion:-92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:47658.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAAGGACAATACTAAAACTATAATAGT ACAGCTGAACGAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAAATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42117.2|gb|MF777356 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42117.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42117.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGAGGCTAAAGCATATGATAAAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT AATTTAAAGTGC------------------------------------------ACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATATCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACARGAGATGGTGGTACA---AATAGTAGT---------------- --------------------GACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42112.2|gb|MF777351 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42112.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42112.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT AATTTAAAGTGC------------------------------------------ACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACTAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTGCTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42130.2|gb|MF777369 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42130.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42130.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATACGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------ACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGGAT----------- ----GCTACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CAAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAATATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42107.2|gb|MF777346 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42107.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42107.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT AATTTAAAGTGC------------------------------------------ACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CAAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAATATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42129.2|gb|MF777368 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42129.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42129.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTAGTGGTAGCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTGAT------GAA---------TATAGGTCGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCGAGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACC---------------------------- -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -----------------------------------------------------TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42119.2|gb|MF777358 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42119.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42119.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AGTAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42132.2|gb|MF777371 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42132.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42132.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAAGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGRAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAGGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATATCACTAGTAGT------------- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATATCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTT-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACCGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42111.2|gb|MF777350 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42111.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42111.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAAT---------AGTAGCGGGGGA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATATCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------AAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTACTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42121.2|gb|MF777360 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42121.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42121.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTAGTAGGAGCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AGTAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42118.2|gb|MF777357 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42118.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42118.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGCTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGAATAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------ACT---------------GATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTCGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42114.2|gb|MF777353 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42114.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42114.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATATCACTGCTAAT------------- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAG- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42120.2|gb|MF777359 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42120.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42120.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATATCACTGCTAAT------------- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAG- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42127.2|gb|MF777366 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42127.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42127.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAACATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATATCACTGCTAAT------------- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAAATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGATTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAG- --------------------AACGAGCCC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42125.2|gb|MF777364 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42125.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42125.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAACATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATATCACTGCTAAT------------- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42124.2|gb|MF777363 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42124.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42124.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACYACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATATCACTGCTAAT------------- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42123.2|gb|MF777362 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42123.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42123.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------CGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42108.2|gb|MF777347 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42108.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42108.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGGGGAAT---GCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGGAT----------- ----ACTCCTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42126.2|gb|MF777365 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42126.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42126.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T------------AGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCGAGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42110.2|gb|MF777349 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42110.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42110.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T------------AGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCGAGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42113.2|gb|MF777352 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42113.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42113.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T------------AGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCGAGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42131.2|gb|MF777370 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42131.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42131.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T------------AGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCGAGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42116.2|gb|MF777355 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42116.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42116.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGG------------------------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAGG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ATTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|42128.2|gb|MF777367 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42128.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42128.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAAT------AGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATACGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42122.2|gb|MF777361 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42122.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42122.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T------------AGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42115.2|gb|MF777354 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42115.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42115.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T------------AGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCAGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---TATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42109.2|gb|MF777348 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42109.2] [isolation-source=plasma from subject F2] [collection-date=Jan-1999] [note=days-post-seroconversion:92 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42109.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC T------------AGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCCGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTACAATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTCTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43634.1|gb|MF777378 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43634.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43634.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATATCACTAGTAGTAGCGAGGAA---- ---------------------GCGATGGAG---AGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAGAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CAAGGGAAACGGACCATGTAGAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGRC-AAATTAAGA------AAACAA---TTTGGACAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---ACTAGTACCTGGAAT-------GAGACTGGTACTAAAAGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAAT---------GAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43651.1|gb|MF777395 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43651.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43651.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAGTGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGAAT----------- ----ACTACTGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACGAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------AAAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43641.1|gb|MF777385 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43641.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43641.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATATCACTAGTAGTAGCGAGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTARAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAACTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43643.1|gb|MF777387 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43643.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43643.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------CGGAAT------GCTACT---------------AATAGCAC TGGCACTGATCGGAAT------------------------------GCTACTAATAGCACTGGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43648.1|gb|MF777392 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43648.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43648.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTCGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTWAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT---------------------CGGAAT------GCTACT---------------AATAGCAC TGGCACTGATCGGAAT------------------------------GCTACTAATAGCACTGGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGAGAAAAAAAGA >gnl|viroverse|43636.1|gb|MF777380 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43636.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43636.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAGAGTGCACTAAT---------------------GCT------------ACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGAAT----------- ----ACTACTGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43650.1|gb|MF777394 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43650.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43650.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGG------------------------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAATAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGAAT----------- ----ACTACTGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43644.1|gb|MF777388 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43644.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43644.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAACAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGAAT----------- ----ACTACTGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT ACAGAGA-GAAAAAAGA >gnl|viroverse|43631.1|gb|MF777375 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43631.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43631.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGAAT----------- ----ACTACTGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43647.1|gb|MF777391 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43647.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43647.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAAGGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGGTTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGAAT----------- ----ACTACTGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43637.1|gb|MF777381 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43637.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43637.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTAAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCRCAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43628.1|gb|MF777372 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43628.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43628.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTAAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43639.1|gb|MF777383 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43639.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43639.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAACAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTAAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43632.1|gb|MF777376 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43632.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43632.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTAAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43630.1|gb|MF777374 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43630.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43630.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTAAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43640.1|gb|MF777384 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43640.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43640.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTGGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTAAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43642.1|gb|MF777386 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43642.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43642.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTAAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC C---------------------------------------------AGTACTAATATCACTAGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCG-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTGCTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43635.1|gb|MF777379 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43635.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43635.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATATCACTAGTAGTGTTGCTAATATC- ---------------------ACGATGGAG---AGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCTGAAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGGTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43629.1|gb|MF777373 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43629.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43629.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGAAAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC C---------------------------------------------AGTACTAATATCACTAGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGAAGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43645.1|gb|MF777389 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43645.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43645.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAGTGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAAT---GCTACT---------------AATATCAC C---------------------------------------------AGTACTAATATCACTAGTAGTGCTGCTAATATC- ---------------------ACGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGGATGAGAAGTT CGAGGGAAAAGGACGATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43633.1|gb|MF777377 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43633.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43633.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAGGTGCACTGAT------------------------------------------------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCACTAGTAGTAGCAGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTGTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAGGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGACAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43638.1|gb|MF777382 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43638.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43638.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAG----------------------------------- -------------AAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGAAA---- ---------------------GCGATGGAG-----------GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAAAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTAGAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATACTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43649.1|gb|MF777393 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43649.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43649.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATARCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---AGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAG------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43646.1|gb|MF777390 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43646.1] [isolation-source=plasma from subject F2] [collection-date=Jul-1999] [note=days-post-seroconversion:274 viral-load:230 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43646.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------TGGAAG---------------------------AATGCTAC TAATTGG---AAGAAT------------------------------GCTACTAATATCACTAATAGTAGCGGGGAA---- ---------------------GTGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATACAACAGGAGACATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------------- --------------------GAAAATACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GGAAAAAGA >gnl|viroverse|44190.1|gb|MF777407 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44190.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44190.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAGGTGCACTGAT------------------------------------------------------AATATCAC T---------AGTAGT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---AGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAGAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----GATACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGRCGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGACAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44031.1|gb|MF777405 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44031.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44031.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAGGTGCACTGAT------------------------------------------------------AATATCAC T---------AGTAGT------------------------------GCTACTAATAGCGCTAGTAGTAGCGGGAAA---- ---------------------GCGATGGAG-----------GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----AGTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTRTACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA------------------------AAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44197.1|gb|MF777414 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44197.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44197.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGG------------------------------AATATCAC T---------AGTAGT------------------------------GCTACTAATAGCATTAGTAGTAGCGGGAAA---- ---------------------GCGATGGAG-----------GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCCTT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44030.1|gb|MF777404 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44030.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44030.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGCTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAA T---------AGTAGT------------------------------GCTGCTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGRTGTAGTACAAATA-GAGAAT----------- ----GATAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTTCAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT--------------------------------------------------------- -------------------------------------------------------------------------------- ----CAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GTAAAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44022.1|gb|MF777396 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44022.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44022.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCATTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---YTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44028.1|gb|MF777402 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44028.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44028.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44189.1|gb|MF777406 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44189.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44189.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44029.1|gb|MF777403 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44029.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44029.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGCGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAGCTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44195.1|gb|MF777412 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44195.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44195.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACA----------------------------------------------------------------------------- -------------------------------------------------------------------------------- ----------------------------------------------------AAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----GATAATGAT------AGT---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTTCAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGACCT---AATAAAACAA TAGTCTTTGCAAACTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACACAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAATAGT---------GAAAAT- --------------------AAAGACACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44193.1|gb|MF777410 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44193.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44193.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44198.1|gb|MF777415 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44198.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44198.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44196.1|gb|MF777413 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44196.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44196.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44025.1|gb|MF777399 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44025.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44025.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGGTGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCGAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AGTAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAATAGT---------GAAAAT- --------------------AAAGACACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44194.1|gb|MF777411 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44194.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44194.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGT---------AATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAATAGT---------GAAAAT- --------------------AAAGACACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44191.1|gb|MF777408 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44191.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44191.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATGCCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAATAGT---------GAAAAT- --------------------AAAGACACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44026.1|gb|MF777400 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44026.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44026.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTACAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTGTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAACATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAACTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAARACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAGTAGT---------GGAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44024.1|gb|MF777398 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44024.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44024.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAGTGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGC-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------ACT---------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATAGCACTGGTAGTAGCGGGAAA---- ---------------------GCGATGGAG-----------GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCCTT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATAGTAGT---------GTAAAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44192.1|gb|MF777409 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44192.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44192.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAAGTGCACTGAT-------------------------------------------------------------- ----------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACAAGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACACAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAATAGT---------GAAAAT- --------------------AACGACACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44023.1|gb|MF777397 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44023.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44023.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAGGTGCACTGAT------------------------------------------------------AATATCAC T---------AGTAGT------------------------------GCTGCTAATATCAATAGTAGTAGCAGGGAA---- ---------------------GCGATGGAG---AGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAAAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGAAAT----------- ----ACTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCCAACTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATAATAGT---------GAAAAT- --------------------AAAGACACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44027.1|gb|MF777401 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44027.1] [isolation-source=plasma from subject F2] [collection-date=Jan-2000] [note=days-post-seroconversion:442 viral-load:190000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:44027.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAT---AATAAAACAA TAGTCTTTACAAACTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42474.1|gb|MF777445 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42474.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42474.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAG GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAGTAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAC T---------AGTAGT------------------------------ACTGCTAATGGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATG-AAAAATTGCTCTTTCAAGGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----GATAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATAACTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGTTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTTCAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42470.1|gb|MF777441 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42470.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42470.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAGTAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAC T---------AGTAGT------------------------------ACTGCTAATGGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATG-AAAAATTGCTCTTTCAAGGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----GATAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGCTAAAACTATAATAGT ACAGCTGAACAGATCTGTAGTAATTAATTGTACAAGACCCTTCAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42469.1|gb|MF777440 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42469.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42469.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAGTAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAC T---------AGTAGT------------------------------ACTGCTAATGGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GAA-----GGAGAAATG-AAAAATTGCTCTTTCAAGGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----GATAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGCTAAAACTATAATAGT ACAGCTGAACAGATCTGTAGTAATTAATTGTACAAGACCCTTCAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA T---------------------------------AGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42458.1|gb|MF777429 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42458.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42458.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAC T---------AGTAGT------------------------------ACTACTAATAGCACTAGTGGTAGCGGGAAA---- ---------------------GCGATGGAG-----------GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGACAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAACACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGCTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42457.1|gb|MF777428 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42457.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42457.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------ACT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTACAATAATACAAGACAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACAC-TTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAACACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGYTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------AAAGAT- --------------------AACGAGACC------GAGATTTTCAGACCTGAAGGAGGGGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42452.1|gb|MF777423 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42452.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42452.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GAGAAT----------- ----GCTACTGAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCATCTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAATACCTGGAAT-------GAGACTGGTACTAACGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42446.1|gb|MF777417 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42446.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42446.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GAGAAT----------- ----ACTACTAAT------GAA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAGACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------AAAGAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42461.1|gb|MF777432 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42461.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42461.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGT------------------------------------------GCT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATATAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGKTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42450.1|gb|MF777421 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42450.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42450.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAACGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGAAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------AAAGAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42473.1|gb|MF777444 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42473.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42473.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCCTT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGGATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCAG---AATAAAACAA TAGTCTTTACAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGT------AATAGTAGT---------GGAAAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAGTTATATAAATATAAAGTGGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42456.1|gb|MF777427 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42456.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42456.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGAATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAGGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAACACAAGAACAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTACGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGATAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAGTTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42468.1|gb|MF777439 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42468.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42468.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGTAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGCACCTGGAAT-------GGGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGT------AATAGTAGT---------AAAGAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42465.1|gb|MF777436 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42465.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42465.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGATATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGGATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42475.1|gb|MF777446 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42475.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42475.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATAATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42466.1|gb|MF777437 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42466.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42466.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAACACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTCTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAAGCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTA----------------TAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42448.1|gb|MF777419 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42448.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42448.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAACACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTCTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTACGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42472.1|gb|MF777443 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42472.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42472.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAGGGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGAAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GRAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42445.1|gb|MF777416 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42445.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42445.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGAGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------AAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42463.1|gb|MF777434 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42463.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42463.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCTGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGCTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTGATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGAACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42455.1|gb|MF777426 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42455.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42455.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTACGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42454.1|gb|MF777425 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42454.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42454.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAAAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAC------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAAGAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42460.1|gb|MF777431 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42460.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42460.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATGGGAGATGAGAAGAAGAAAGAACATGCA-CTTTTTTATGAACCTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42459.1|gb|MF777430 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42459.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42459.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTTATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAAACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAA-TCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------AAAGAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42451.1|gb|MF777422 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42451.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42451.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGCAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCAGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACT------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42467.1|gb|MF777438 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42467.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42467.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATAATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGCAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTC ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAAGGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42449.1|gb|MF777420 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42449.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42449.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACACATA------GGAC CAGGAAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACGCA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42453.1|gb|MF777424 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42453.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42453.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAA---------------------- -----TAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42464.1|gb|MF777435 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42464.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42464.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAACTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTGGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGAAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42462.1|gb|MF777433 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42462.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42462.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTAGCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTGGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGAAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGTTGTTCATCAGAGGTTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------AAAGAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42471.1|gb|MF777442 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42471.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42471.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCGGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAC T------------AGT------------------------------AGTGCTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGCAG---GAA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACGATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTTCAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAG---AATAAAACAA TAGTCTTTACAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTAAAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42447.1|gb|MF777418 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42447.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2000] [note=days-post-seroconversion:624 viral-load:83000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42447.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCGTCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAGTAGACTTGGTAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAC G------------AGT------------------------------AGTGCTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGCAG---GAA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGGAGATAAGAAGAAGAAAGAACATGCA-CTTTTTTATAAACTTGATGTAGTACAAATA-GAGAAT----------- ----GATAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTTCAATAATACAAGAAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAGTAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA------------------------GAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43292.1|gb|MF777458 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43292.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43292.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACCCATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTGGTAGCAGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGGAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACGAATA-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT TGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATYTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAATCTTTACAAAACACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTATA---AATGGTAGTGTAAATGGTGTAGAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43295.1|gb|MF777461 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43295.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43295.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAGTAGACTTGGTAAACGTGACAGAAGAATTTAACATGTGGGAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGATTAACCCCACTCTGTGTT ACTTTAAACTGCACTGAT---------------------TGGAAGAATAATGCTACT---------------AATATCAC T------------GGT------------------------------AGTGCTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------ACKATGCAG---GAA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAGG CATAGGAGATAAGAAGAAGAGAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACGCATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCACGGCCAATGTTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCTTCAATAATACAAGCAAAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCAG---AATAAAACAA TAGTCTTTACAAATTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCATACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGT------------------------GAAGAT- --------------------AACGAGACC------GAGACTTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43281.1|gb|MF777447 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43281.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43281.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----A---ATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCAG---AATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAAATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGTGTAAATGGTAGT---------GTAGAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43293.1|gb|MF777459 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43293.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43293.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATGTCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGGG---GGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----A---ATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCAG---AATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAAATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGTGTAAATGGTAGT---------GTAGAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43286.1|gb|MF777452 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43286.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43286.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATAATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAATAGTAGCGGGGAA---- ---------------------GCGATGGAGGGAGGA-----GGAGAAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CAGAGAAGATAAGAAGAAAAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAATAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCAG---AATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43294.1|gb|MF777460 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43294.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43294.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCAGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCAG---AATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGTTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGTGTAAATGGTAGT---------GTAGAT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43404.1|gb|MF777470 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43404.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43404.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATAATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT TGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCAG---AATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACAAAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTACAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------------- --------------------AACAATACT------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43298.1|gb|MF777464 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43298.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43298.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGCCTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACATTAGTAGTAGCAGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GAGGGT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAGAAGAGATAGTAATTAGATCT-GAAAATTTCAGTAAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTACAAAACACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GGGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGGTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GRAAAT- --------------------AACAAGACCGAGATTGAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43300.1|gb|MF777466 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43300.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43300.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAAGGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAGAATGCACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------AAGACTGATACTAAAGAAAATGACACA------------------ATCACACTTC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAGTTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGT------AATAGTAGT---------AAAGAG- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43284.1|gb|MF777450 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43284.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43284.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAACTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTACTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------------- --------------------AACAATACT------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43283.1|gb|MF777449 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43283.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43283.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCCTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACAAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAAGAGT---------GAAAAT- --------------------AACGACACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGCTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43287.1|gb|MF777453 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43287.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43287.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAACACTAGTGGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATA-GGGGAT----------- ----ACTAATGAT------GGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTAAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------AAAAAT- --------------------AACAAGACCGAGATTGAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43290.1|gb|MF777456 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43290.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43290.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATTCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACCCATGCCTG TGTACCCACAGACCCCGACCCACAGGAAATAAACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATGACACTAGTAGTAGCAGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGYACAAATG-GAGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAAATTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACTTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43302.1|gb|MF777468 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43302.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43302.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAATAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------------- --------------------AACACTACT------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43299.1|gb|MF777465 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43299.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43299.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAATGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAAGGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------------- --------------------AACACTACT------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43285.1|gb|MF777451 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43285.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43285.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATGAT------AGA---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATAGTAGT---------------- --------------------AACACTACT------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43289.1|gb|MF777455 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43289.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43289.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAARACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43296.1|gb|MF777462 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43296.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43296.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGATATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43301.1|gb|MF777467 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43301.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43301.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG YGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43297.1|gb|MF777463 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43297.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43297.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGRTAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43288.1|gb|MF777454 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43288.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43288.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTGATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGGAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCACGAACAATGGTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43403.1|gb|MF777469 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43403.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43403.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CATTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATRTTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAGAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAAGGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAGAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACTTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43282.1|gb|MF777448 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43282.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43282.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACCCATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CATAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATGAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAGATTTCAGTAAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCCT---AATAAAACAA TAGTTTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43291.1|gb|MF777457 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43291.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2001] [note=days-post-seroconversion:986 viral-load:170000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43291.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAAT------AGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTRGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAAAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTGCAAAACACCCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGA------AATAGTAGT---------GAAAAT- --------------------AACAAGACCGAGATTGAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42034.1|gb|MF777490 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42034.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42034.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGAATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATACACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-GTGAAT----------- ----------------GATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTTAATAGTACCTGG---AATAATAGTACC---TGGAATTCT------------------ ---AATAGTACCTGGAAT-------GGGACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41972.1|gb|MF777481 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41972.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41972.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-GTGAAT----------- ----------------GATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAATAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCATTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGGAAT-------GGGACTGGTACTGAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42029.1|gb|MF777485 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42029.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42029.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTGATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-GGGAAT----------- ----------------GATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGGAAT-------GGGACTGGTACTGAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42345.1|gb|MF777492 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42345.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42345.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAATAGTTATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGGAAT-------GGGACTGGTACTGAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42035.1|gb|MF777491 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42035.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42035.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAAAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAATAGCTATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGG TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTGAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41642.1|gb|MF777472 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41642.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41642.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAATAGCTATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42003.1|gb|MF777483 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42003.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42003.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAATAGCTATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41952.1|gb|MF777478 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41952.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41952.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAATAGCTATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41644.1|gb|MF777474 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41644.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41644.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAGAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATACACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAATAGCTATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---T-TGGGCTTAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42007.1|gb|MF777484 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42007.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42007.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAGAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATACACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAATAGCTATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42030.1|gb|MF777486 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42030.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42030.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAGAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATACACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GGGGAT----------- ----ACTAATAATAGCTATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGACTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41970.1|gb|MF777479 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41970.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41970.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTGATAGCACTAGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAATAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGGAAT-------GAGAATGATACTAGAGGAAATAACACA------------------ATCACACTTC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41643.1|gb|MF777473 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41643.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41643.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGCCTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAATAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGGATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGCAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42033.1|gb|MF777489 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42033.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42033.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGCCTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAATAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41950.1|gb|MF777477 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41950.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41950.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGCCTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAATAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41645.1|gb|MF777475 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41645.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41645.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGCCTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAATAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41637.1|gb|MF777471 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41637.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41637.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAGCCTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAATAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGYACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41971.1|gb|MF777480 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41971.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41971.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41949.1|gb|MF777476 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41949.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:41949.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAAAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAATAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42031.1|gb|MF777487 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42031.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42031.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATAAACTTGGAAAATATGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCTCTAGTAATAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTTTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAGATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATATA------GGAC CAGGGAGAGCATATTATGCAACAGGAGATATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGCACC---TGGAATTTT------------------ ---AATAGTACCTGGAAT-------GAGAATGGTACTCAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCGTCAGCGGACTAAT TAGTTGTTCATCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAT---AATAGTAGT---------GAAGAT- --------------------AACAATACC------GAGATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42000.1|gb|MF777482 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42000.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42000.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAGAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATATACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCAATGGTAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTAAAATTA-GGGGAT----------- ----ACTAAT------GATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGGAAT-------GAGAATGATACTAGAGGAAATAACACA------------------ATCACACTTC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGACTTTCAGGCCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42032.1|gb|MF777488 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42032.1] [isolation-source=plasma from subject F2] [collection-date=Jul-2002] [note=days-post-seroconversion:1343 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42032.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAGAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCGACCCACAAGAAATACACTTGGAAAATGTGACAGAAGAGTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAGGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATCAC T---------AAGAAT------------------------------GCTACTAATAGCACTAATAGTAGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATA-GAGAAT----------- ----------------GATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGGCTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGGAAT-------GAGAATGATACTAGAGGAAATAACACA------------------ATCACACTTC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACTAAT TAGATGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGAGATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43494.1|gb|MF777511 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43494.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43494.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAATTGT TGTTAAATGGCAGTATAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43478.1|gb|MF777495 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43478.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43478.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT CCAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAATATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAGATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT------------AAC- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGCTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43484.1|gb|MF777501 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43484.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43484.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGGAA---- ---------------------GCAATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43475.1|gb|MF777493 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43475.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43475.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCTCACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAAGACCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAAAGGTATACATGTA------GGAC CAGGGAGAGCATATTATGCAACAGGAGCTATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAACA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43490.1|gb|MF777507 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43490.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43490.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCCCTAGTAGTACCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTATAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAAATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43491.1|gb|MF777508 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43491.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43491.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TATTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGCAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAAA---AATATTAGT------------AAC- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43483.1|gb|MF777500 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43483.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43483.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCATCTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AATGAGACC------GAAATTTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAGCCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43485.1|gb|MF777502 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43485.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43485.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCATCCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCAGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTAAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT CAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43487.1|gb|MF777504 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43487.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43487.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGGATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAAAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43492.1|gb|MF777509 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43492.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43492.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAATTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAAGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GCCTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43486.1|gb|MF777503 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43486.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43486.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCGTTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGGGATGGTGGTAGTGGTAAAAACATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43481.1|gb|MF777498 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43481.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43481.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAACCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGAAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43480.1|gb|MF777497 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43480.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43480.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAAGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGT---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43488.1|gb|MF777505 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43488.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43488.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT------------AAC- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43479.1|gb|MF777496 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43479.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43479.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGATTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43482.1|gb|MF777499 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43482.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43482.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43489.1|gb|MF777506 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43489.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43489.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------AATGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43493.1|gb|MF777510 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43493.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43493.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCATCTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAAATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43477.1|gb|MF777494 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43477.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43477.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GATTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47670.1|gb|MF777512 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47670.1] [isolation-source=plasma from subject F2] [collection-date=Nov-2003] [note=days-post-seroconversion:1833 viral-load:950000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:47670.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAATACCTGG-------------ACTGGTACTGAAGGAAATGACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43687.1|gb|MF777517 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43687.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43687.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACACTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGCAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACTGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAGTCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAACA GACTGGAATAACACTTTAAAACAGATAGTTGAT-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAACAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGTTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAAATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43696.1|gb|MF777526 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43696.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43696.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAATTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGGAAAGGTATACCTCTA------GGAC CAGGGAGAGCACTTTATGCAACAGGAGCTATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAACA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGWGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAATTGTTT------------------AATAGTACC---TGGAACCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43703.1|gb|MF777533 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43703.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43703.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCATCTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAGAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGRAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------AATGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGTTGCTACTAACAAGAGATGGGGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43688.1|gb|MF777518 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43688.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43688.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCAGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATTTC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAGTACCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GATTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTTAAGAATAAAACAA TAATCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTATTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAAAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43694.1|gb|MF777524 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43694.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43694.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAGTACCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-TTTTTTTATAACCTTGATATAGTACAAATA-AGGAAT----------- ----------------AATAGT---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43684.1|gb|MF777514 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43684.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43684.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCATCTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGAACCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTTAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAAAAGAGGTATACATATA------GGAC CAGGGAGAGCAATTTATGCAACAGGAGCTATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTAATAAAGGAAATAATACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43697.1|gb|MF777527 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43697.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43697.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAAGTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAATAAGAGGGGTACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAGCTATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GATTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCAYTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTATTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43689.1|gb|MF777519 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43689.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43689.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACTGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACCAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT CGAGGGAAAAGGGAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTATAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43691.1|gb|MF777521 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43691.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43691.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43698.1|gb|MF777528 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43698.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43698.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAATTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAGAGTGC------------------------------------------CAT---------------AATATC-- -------------AAT------------------------------GCTACTAATAGCTCTAGTAATACCGGGAAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGCTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GATTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43702.1|gb|MF777532 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43702.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43702.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAATCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAGAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------AAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAAGGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAAGAGATAGTAATTAGATCT-GAAAATTTCAGTGAGAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAGAGGTATACATATA------GGAC CAGGGAGAGCAATTTATGCAACAGGAGCTATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------CTCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43683.1|gb|MF777513 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43683.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43683.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGATGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGGGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATGTAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTATAGCAAAAAAGGAAATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAGAGGTATACATATA------GGAC CAGGGAGAGCAATTTATGCAACAGGAGCTATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAGCTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATATATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGC- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43695.1|gb|MF777525 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43695.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43695.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAACAATAATACAAGAAGAGGTATACATATA------GGAC CAGGGAGAGCAATTTATGCAACAGGAGCTATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTCAT-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTT-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACT---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43690.1|gb|MF777520 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43690.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43690.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGAGGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCTGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT TGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAGAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAGCAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAATTGTTCATCAGAGATTACAGGGTTGCTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43686.1|gb|MF777516 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43686.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43686.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAAAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAGT------------------------------GCTACCAATAGCTCTAGTAGTAGCGGGGAA---- ---------------------GTGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GATTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAGGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCACTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43701.1|gb|MF777531 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43701.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43701.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCATCTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGCATAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GATTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATAGTACCTGG-------------ACTGGTACTGAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43699.1|gb|MF777529 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43699.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43699.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAT GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGATTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAATAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GATTGGAATAACACTTTAAAACAGATAGTTGGC-AAATTAAGA------AAACAA---TCTGACTTTAAGAATAAAACAA TAGTCTTTACAAATCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGCACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43700.1|gb|MF777530 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43700.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43700.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA TTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACGTT TGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAATTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43685.1|gb|MF777515 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43685.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43685.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAT GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACCCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGAGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTATAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGATAACACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGTTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43692.1|gb|MF777522 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43692.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43692.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAACTGCTCTTTCAATGTCACCACAAA CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGGTAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTCTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGCACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGCCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGA---AATATTAGT---------------- --------------------AACGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43693.1|gb|MF777523 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43693.1] [isolation-source=plasma from subject F2] [collection-date=May-2004] [note=days-post-seroconversion:2017 viral-load:1400000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43693.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTATATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAAGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAAACCCCGACCCACAAGAAATAAACTTGGAAAATGTGACAGAAGAATTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAGCTTAACTCCACTCTGTGTT ACTTTAAGGTGC------------------------------------------CAG---------------AATATCAC T---------AAGAAT------------------------------GCT---AATAGCACTAGTAGTGGCGGGGAA---- ---------------------GCGATGGAG---GGA-----GGAGGAATG-AAAAATTGCTCTTTCAATGTCACCACAAG CTTAAAAGATAAGAAGAAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTACAAATG-GAGGAT----------- ----ACTAATAATAGTAATAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCTTTTGAACCAATTCCCATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATGAGACATT CGAGGGAAAAGGAAAATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGT TGTTAAATGGCAGTCTAGCAAAAAAGGAGATAGTAATTAGATCT-GAAAATTTCAGTGAAAATGCTAAAACTATAATAGT ACAGCTGAACAAATCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAATAAGAGGTATACATATA------GGAC CAGGGAGAGCATTTTATGCAACAGGAAAGATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA GACTGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TCTGACTTCAAGAATAAAACAA TAGTCTTTACAAACCACTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATTCAACACAACTGTTT------------------AATAGTACC---TGGAATCCT------------------ ---AATGGTACCTGG-------------ACTGGTACTAAAGGAAATAACACA------------------ATCACACTCC CCTGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCCTCAGAGATTACAGGGCTGCTACTAACAAGAGATGGTGGTAGTGGTAAAAATATT------------AGT- --------------------AATGAGACC------GAGATTTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAGTTATACAAATATAAAGTAGTAAGAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAACAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42217.2|gb|MF777553 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42217.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42217.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAACCCAACCCCA-------------- -------------------------------------------ACTACTACAACCACTAATAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----AGGAATAAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GAAAAT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42137.2|gb|MF777537 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42137.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42137.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCAACCCCA-------------- -------------------------------------------ACTACTACAACCACTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATAAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAGACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAG AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTAGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42136.2|gb|MF777536 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42136.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42136.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCCACCCCAACTGCT-------- -------AAACCAACCCCA------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAATAA TAATCTTTAGGAACTCCTTA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GAAAAT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42141.2|gb|MF777541 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42141.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42141.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCAATCCCATCCATT-------- -------------ACCCCA------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGACGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTTA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTATGAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42214.2|gb|MF777551 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42214.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42214.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCAATCCCATCCATT-------- -------------ACCCCA------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGACGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTTA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42142.2|gb|MF777542 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42142.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42142.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCAATCCCATCCATT-------- -------------ACCCCA------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTTGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGACGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTTA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42216.2|gb|MF777552 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42216.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42216.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCG-------------------------------- ----------------------------------------------ACTACAACCAATAGTAGTAGCGAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATAAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GAAATT- -----------------------------------GAGATCTTCAGACCTAGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42209.2|gb|MF777548 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42209.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42209.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACTAACCCCA-------------- -------------------------------------------ACTACTATAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGACATTAAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42210.2|gb|MF777549 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42210.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42210.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCAACCCCA-------------- -------------------------------------------ACTACTACAACCACTAATAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGACATTAAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42134.2|gb|MF777534 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42134.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42134.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGCGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTG-----------TAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCCACCCCAACTGCGGTTACTTC GACTATTAAACCAACCCCA------------------------ACTACTACAACCACTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGGGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42138.2|gb|MF777538 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42138.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42138.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCAACCCCAACA----------- -ACCCCA------------------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42135.2|gb|MF777535 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42135.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42135.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCCACCCCAACTGCT------TC GACTATTAAACCAACCCCA------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGAGGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42208.2|gb|MF777547 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42208.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42208.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTG-GAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTAGTAAACCAACCCCA-------------- -------------------------------------------ACTACTACAACCACTAATAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGGGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42145.2|gb|MF777545 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42145.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42145.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTAGTAAACCAACCCCA-------------- -------------------------------------------ACTACTACAACCACTAATAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGGGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCAYCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42218.2|gb|MF777554 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42218.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42218.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCAACCCCA-------------- -------------------------------------------ACTACTGCAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGGGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42207.2|gb|MF777546 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42207.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42207.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACTAACCCCA-------------- -------------------------------------------ACTACTATAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAARAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGGGGGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAATAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42144.2|gb|MF777544 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42144.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42144.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACTAACCCCA-------------- -------------------------------------------ACTACTATAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGGGGGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42213.2|gb|MF777550 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42213.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42213.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCCACCCCAACTGCT-------- -------AAACCAACCCCA------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTACGAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42143.2|gb|MF777543 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42143.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42143.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCCACCCCAACTGCT------TC GACTATTAAACCAACCCCA------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTACGAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTAGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42140.2|gb|MF777540 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42140.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42140.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCGACTATTAAACCCACCCCAACTGCT------TC GACTATTAAACCAACCCCA------------------------ACTACTACAACCACTAGTAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTA-- ------------------------ATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTG------- ------------------GACAGGGCTGCTATTAACAAGAGATGGTGGTACGAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTAGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42139.2|gb|MF777539 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42139.2] [isolation-source=plasma from subject F3] [collection-date=Oct-2002] [note=days-post-seroconversion:94 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42139.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT-------------------------------------------------------------- -------------------------------------------------------------------------------- ---------------------TTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGCATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAAAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTACGAATGTGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTAGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42360.1|gb|MF777556 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42360.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42360.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACA-------- ----------CCAACCCCA------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAGGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAACCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGAT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAACGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAAT---------GAAAAT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42361.1|gb|MF777557 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42361.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42361.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGATATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAGA---------------------------------ACTACTACAACCACTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAAAATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCACATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTAGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42847.1|gb|MF777575 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42847.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42847.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCRACCCCAACTACT------AC AACCACTAGA---------------------------------ACTACTACAACCACTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42768.1|gb|MF777562 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42768.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42768.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAGA---------------------------------ACTACTACAACCACTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTAACGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTAAGCAGT---------GAAAAT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43655.1|gb|MF777577 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43655.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:43655.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAGA---------------------------------ACTACTACAACCACTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAGTGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42364.1|gb|MF777560 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42364.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42364.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAGA---------------------------------ACTACTACAACCACTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGGGAGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42810.1|gb|MF777568 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42810.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42810.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAGA---------------------------------ACTACTACAACCACTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42812.1|gb|MF777570 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42812.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42812.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACA------------------------------ -------------------GTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGRCCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAARTGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42363.1|gb|MF777559 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42363.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42363.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAGA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAA-AAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGATAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42770.1|gb|MF777564 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42770.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42770.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGRCCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTAAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42843.1|gb|MF777572 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42843.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42843.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTAATACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCRCAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42813.1|gb|MF777571 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42813.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42813.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAATATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42772.1|gb|MF777566 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42772.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42772.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCACCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42811.1|gb|MF777569 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42811.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42811.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42769.1|gb|MF777563 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42769.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42769.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42771.1|gb|MF777565 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42771.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42771.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42767.1|gb|MF777561 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42767.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42767.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42846.1|gb|MF777574 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42846.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42846.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42849.1|gb|MF777576 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42849.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42849.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42359.1|gb|MF777555 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42359.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42359.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTACGAATGGGAGCAAT---------GAAAAT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42362.1|gb|MF777558 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42362.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42362.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAAGTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42809.1|gb|MF777567 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42809.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42809.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAAGTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42845.1|gb|MF777573 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42845.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2003] [note=days-post-seroconversion:277 viral-load:50000 CD4-count:585 CD8-count:1536 gene:env] HIV-1 viroverse:42845.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43235.1|gb|MF777589 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43235.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43235.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTATGGGTCACAGTCCACTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACT---------CC AACCCCA------------------------------------ACTACTGCAATCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGGTGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGGGAACAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43243.1|gb|MF777597 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43243.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43243.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAACAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACTACT------AC AACCACTAAA---------------------------------ACTACTGCAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTACAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTC-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAARACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAACAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43227.1|gb|MF777581 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43227.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43227.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTAGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAAT---------GAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43231.1|gb|MF777585 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43231.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43231.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAACCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTCGGG---AAT---AAAACAA TAAACTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGGGCAAT---------AAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43234.1|gb|MF777588 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43234.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43234.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAACAAT---------GGAACT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43240.1|gb|MF777594 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43240.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43240.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAACAAT---------GGAACT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43229.1|gb|MF777583 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43229.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43229.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAACCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAACAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43246.1|gb|MF777600 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43246.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43246.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCRGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAACCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCAGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAACAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43228.1|gb|MF777582 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43228.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43228.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGTT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------ACCAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAATACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTGAAGGAAATGACACC---------------ACCATCATACTCC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTACTATTAACAAGAGATGGTGGTGAGAGTATGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43241.1|gb|MF777595 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43241.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43241.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCRCAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATG-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTGAAGGAAATGACACC---------------ACCATCATACTCC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTACTATTAACAAGAGATGGTGGTGAGAGTATGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43230.1|gb|MF777584 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43230.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43230.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAACTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGGGCAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-AAAAAAAGA >gnl|viroverse|43242.1|gb|MF777596 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43242.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43242.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAACCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGAGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43232.1|gb|MF777586 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43232.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43232.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAACCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACGGAAGGG-------GAAGATGGCATTGAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAATAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGGGAGAAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43236.1|gb|MF777590 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43236.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43236.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTTGACTAATAAAACAACCCCA-------------- -------------------------------------------ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43226.1|gb|MF777580 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43226.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43226.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACA-------- ----------CCAACCCCA------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGRAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGCAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGA---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAAGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAAGGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAGAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43225.1|gb|MF777579 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43225.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43225.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACT---------------------------------ACTATTAAACCCACCCCAACTGCT------TC GACTATTACACCAACC------------------------CCAAATACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CGTAAGTGATAAGAAGCAAGAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACGAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCAGTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGGGAGAAAT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43239.1|gb|MF777593 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43239.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43239.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACATTAAATTGCACT---------------------------------ACTATTAAACCCACCCCAACTGCT------TC GACTATTACACCAACC------------------------CCAAATACTACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGGGAAAAAT---------GAAATT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43244.1|gb|MF777598 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43244.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43244.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACA-------- ----------CCAACCCCA------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTAAAGGG-------GAAGATGGCATTAACGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAAGGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43238.1|gb|MF777592 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43238.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43238.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAGCAATTGTGGGTCACAGTCCATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTYTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACA-------- ----------CCAACCCCA------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTAAAGGG-------GAAGATGGCATTAACGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAAGGTGAGCAATGAAACTGAGGAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43224.1|gb|MF777578 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43224.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43224.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACA-------- ----------CCAACCCCA------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAACCTTTAGGAACTCCTCA-------------------------------GTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTGAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGAGGCAAT---------AAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAGCTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43237.1|gb|MF777591 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43237.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43237.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACA-------- ----------CCAACCCCA------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTACAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGGGCACT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43245.1|gb|MF777599 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43245.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43245.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT-------------------------------------------------------------- ----------------------------------------------ACTACAACCACTAATAATAGCACA---------- ---------------------GTGGAGRAGGAA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGCCCA AAAGTATCCTTTGAACCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGACACC---------------GCCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTGGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTACGAATGGGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43233.1|gb|MF777587 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43233.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2003] [note=days-post-seroconversion:451 viral-load:45000 CD4-count:573 CD8-count:1126 gene:env] HIV-1 viroverse:43233.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACT------AC AACCCCAACTACTACAACCCCA---------------------ACTATTACAACCACTAATAGTAGCAAA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GTAGATGGCATTAAAGGAAATGACACC---------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAAT---------GAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43986.1|gb|MF777604 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43986.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43986.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCAACCCCAACT----------- ----------ACTACAACCACTAGAACT------------------ACTTCAACCACTAATAATAGCACA---------- ---------------------GTGGAAAAGGAA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGAGAGCAAT---------AAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|44020.1|gb|MF777618 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44020.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:44020.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACT------AC AATCCCAACTACTACAACCCCAACTGCTTCAACCACTAGA---ACTRATACAACCACTGGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAAATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGTTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAGCTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACGGAAGAG-------AAAGATGGCACTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATACGAGCAAT---------GAACCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43993.1|gb|MF777611 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43993.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43993.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGGAGGGG-ATCAGGAGGAGTTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGG-AAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACT------AC AATCCCAACTACTACAACCCCAACTGCTTCAACCACTAGA---ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAACATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTA------------------------------TAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGCACTTGG------AATAGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGGGCAATGAAACTGAGGAAATT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43994.1|gb|MF777612 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43994.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43994.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAGTTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACT------AC AATCCCAACTACTACAACCCCAACTGCTTCAACCACTAGA---ACTAATACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCGACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGCACTTGG------AATAGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATYAACAAGAGATGGTGGTAACAATGGGGGCAATGAAACTGAGGAAATT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAAGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|44019.1|gb|MF777617 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44019.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:44019.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACT---------------------------------ACTATTAAACCCACCCCAACT----------- -------------------------GCTTCGACATCAACCCCAACTACTGCAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATTATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATAGT--------------------------------- ---------ACTGAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGGGATGGTGGTAACAATGGGGGCAAT---------GAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAAGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|44199.1|gb|MF777620 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44199.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:44199.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAACCACTAATAATAGCACG---------- ---------------------GTGGAGAAGGAA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAATATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTT------ACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGAGCAAT---------------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43985.1|gb|MF777603 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43985.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43985.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCARATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGACGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCGATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGGGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43989.1|gb|MF777607 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43989.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43989.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGTCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAAAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43984.1|gb|MF777602 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43984.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43984.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AAATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAAGATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43991.1|gb|MF777609 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43991.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43991.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACYCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATCAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43988.1|gb|MF777606 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43988.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43988.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAACAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43990.1|gb|MF777608 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43990.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43990.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGGCCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|44017.1|gb|MF777615 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44017.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:44017.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGACGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|44016.1|gb|MF777614 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44016.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:44016.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|44018.1|gb|MF777616 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44018.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:44018.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AACCCCAACT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------GTGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|44015.1|gb|MF777613 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44015.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:44015.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTC-------------------------------------------------------------------------- -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -----------------AAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43987.1|gb|MF777605 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43987.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43987.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACA------CC AACCCCA------------------------------------AATACTACAGCCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTTAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAA-------------- ----GGGAATACG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTT------ACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGGACACT---------GAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43992.1|gb|MF777610 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43992.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43992.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCCACCCCAACT----------- -------------------------GCTTCAACCACTAGA---AATACTACAACCACTAATAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAAAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTT------ACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAACGAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGGGAAAAAAAGA >gnl|viroverse|44021.1|gb|MF777619 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44021.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:44021.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------------ACTATTAAACCCACCCCAACT----------- -------------------------GCTTCAACCACTAGA---AATACTACAACCACTAATAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAAAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTT------ACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAACGAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43983.1|gb|MF777601 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43983.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2004] [note=days-post-seroconversion:634 viral-load:28000 CD4-count:487 CD8-count:1123 gene:env] HIV-1 viroverse:43983.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACT------AC AACCCCA------------------------------------AATACTACAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGAGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GGT-------------- ----GGGAATGAG---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTT------ACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGGACAAT---------GGAACT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42509.1|gb|MF777628 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42509.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42509.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAARGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC AGCCCCACCT---------------------------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAGAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42518.1|gb|MF777636 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42518.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42518.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACT---------CC AACCCCA------------------------------------AATACTGCAAACACTAGTAATAGCACA---------- ---------------------ATGGAGAAGAGA--------GAAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATCTCTCGGATAATGCAAAAATCATAATAGT ACAGCTAAACGAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTCTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCGAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAATCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA--GAAAAAGA >gnl|viroverse|42506.1|gb|MF777625 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42506.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42506.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACGTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT------------------------CCTTCG------AAACCAACCCCAACTACT------CC ATCTACTACCTCA------------------------------ACTGCTACAACCATTAGTAGTAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAG-AGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAT------ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCGTA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAGTCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AAGGGT--------------------------------- ---------GCTGAAGGG-------GAAAATGGCATTAAAGGAAATGACACC---------------ACCATTATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAGCAAT---------GACCCT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGATAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGGG-AAAAAAGA >gnl|viroverse|42523.1|gb|MF777641 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42523.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42523.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAACCACTAATAATAGCATG---------- ---------------------GTAGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAACCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTATTCAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GGAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGGGCAAA---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42521.1|gb|MF777639 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42521.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42521.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATACGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATCATAGCACG---------- ---------------------GTGGAGAAGGAA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGCACTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GAAGATGGCATTAAAGGAAATAACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAAAAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42507.1|gb|MF777626 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42507.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42507.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATACGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATCATAGCACG---------- ---------------------GTGGAGAAGGAA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGCACTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GAAGATGGCATTAAAGGAAATAACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAAAAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42505.1|gb|MF777624 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42505.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42505.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAACCACTAATAATAGCATG---------- ---------------------GTAGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGGAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTATTCAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GGAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAAAAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGGGGAGATATGAGGGACAATTGGAGA AGTAAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42511.1|gb|MF777630 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42511.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42511.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAACGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAACCACTAATAATAGCATG---------- ---------------------GTAGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGT---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTATTCAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GGAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAAAAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42510.1|gb|MF777629 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42510.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42510.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAACGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAACCACTAATAATAGCATG---------- ---------------------GTAGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTATTCAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GGAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAAAAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGGGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42519.1|gb|MF777637 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42519.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42519.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAACGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAACCACTAATAATAGCATG---------- ---------------------GTAGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTATTCAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GGAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAAAAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGGGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42522.1|gb|MF777640 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42522.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42522.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAACGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCGCTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGC ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTATTCAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GGAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAAAAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42503.1|gb|MF777622 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42503.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42503.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAGGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTAATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTATTCAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GGAGATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGAAAAAT---------GGAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42508.1|gb|MF777627 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42508.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42508.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAACCACTAATAATAGCACG---------- ---------------------GTGGAGGAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATCCTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCTAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42515.1|gb|MF777633 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42515.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42515.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACT------AC T---------------ACAGCCCCA------------------ACTACTGCAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AGAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCTCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGCACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTCTTC-T ACTATAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCGAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42520.1|gb|MF777638 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42520.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42520.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACT------AC T---------------ACAGCCCCA------------------ACTACTGCAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTATATAAACTTGATATAACACCAATA-GAT-------------- ----GGAAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATGGCATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATGTGAGCAGT---------ACAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42512.1|gb|MF777631 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42512.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42512.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTATGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCGTGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCCCAACTACT------AC T---------------ACAGCCCCA------------------ACTACTGCAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG TATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTATATAAACTTGATATAACACCAATA-GAT-------------- ----GGAAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCC AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCGAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42524.1|gb|MF777642 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42524.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42524.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC A------------------CCCCCAACT---------------ACTACTATAACCACTAATAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AGAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACACTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---CAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCATAGTTTTAATTGT-GGAGGGGAATTTTTTCT ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCAAT---------GGAGAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42502.1|gb|MF777621 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42502.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42502.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTGAT---------------------------------ATTAAACCCACCACAACTACT------AC A---------------GCCCCACCT------------------ACTACTATAACCACTAGTAATAGCACA---------- ---------------------ATGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATCTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATGTGAGCGAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTAAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42516.1|gb|MF777634 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42516.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42516.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTCTAAATTGCACTAAT---------------------------------ATTAAACCCACCACAACTGCT------AC A---------------ACCCCAACTGCTTCACCAACCCTA---AATACTACAACCAATAGTAATAGCACA---------- ---------------------GTGGAGAGGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCGTA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGTT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCGAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAAGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|42517.1|gb|MF777635 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42517.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42517.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTACTATTACATCAACCCCAACT----------- -------------------------------------------ACTACTGCAACCATTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCGAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTAAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42514.1|gb|MF777632 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42514.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42514.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTACTATTACATCAGCCCCAACTACT------AC A---------------ACCCCA---------------------ACTAATACAATCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGGAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCAGTAAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCATCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCGAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42504.1|gb|MF777623 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42504.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2005] [note=days-post-seroconversion:998 viral-load:15000 CD4-count:383 CD8-count:883 gene:env] HIV-1 viroverse:42504.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTACTATTACTACAATCCCA-------------- ----------------------ACTACTTCAACCACTAGA---ACTACTACAACCACTGGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCG---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCGAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43391.1|gb|MF777651 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43391.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43391.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAACACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTAATATTACATCAACCCCA-------------- -------------------------------------------ACTACTGCAAACACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTACAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACGTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATAGG---GAT---------ATAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43394.1|gb|MF777654 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43394.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43394.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTACAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTAATATTACATCAACCCCA-------------- -------------------------------------------ACTACTGCAAACACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTACAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACGTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATAGG---GAT---------ATAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43676.1|gb|MF777660 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43676.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43676.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTAATATTACATCAACCCCA-------------- -------------------------------------------ACTACTGCAACCATTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATAGT--------------------------------- ---------ACTAAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAACAATGAGAGCGAT---------AAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43682.1|gb|MF777663 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43682.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43682.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACTACAATCCCAACTACT-------- ----------------TCAACCGCTAGA---------------ACTACTACAACCACTGGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCATAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GAAAATGACATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGTAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACGAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCCGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43673.1|gb|MF777659 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43673.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43673.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCATAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTAGAACCTCA---ACTACTGCACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------GATGGT--------------------------------- ---------ACTGAAAGG-------GGAGATGGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43397.1|gb|MF777656 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43397.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43397.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTAGAACCTCA---ACTACTGCAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCTTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATAGT--------------------------------- ---------ACTAAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAACAATGAGAGCGAT---------AAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACTAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43389.1|gb|MF777649 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43389.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43389.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTAAAGCCCCA---ACTACTGAAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTT-ATAAACTTGATATAACACCAATA-GAT-------------- ----GGAAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAGTTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAGTCGGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCATAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GAAGATGACATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGTAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGCGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGAGAAAAAAAGA >gnl|viroverse|43386.1|gb|MF777648 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43386.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43386.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTACTATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTGCAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGACAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACGATGGGAAAAAT---------GGAACT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43392.1|gb|MF777652 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43392.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43392.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTACTATTACATCAAYCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTGCAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAGATGACAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACGATGGGAAAAAT---------GGAACT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43395.1|gb|MF777655 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43395.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43395.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATCAGAGCACG---------- ---------------------GTGGAGAAGGAA--------CTAGAAATG-AAGAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAAC---------TATAGGTTAATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAACCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGCCACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAACAATGAGAGCGAG---------AAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGGGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43079.1|gb|MF777645 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43079.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43079.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGGGAATACTAAC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATCTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATAGGAGCAGTGGAACTGAGGAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGAAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43398.1|gb|MF777657 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43398.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43398.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAAC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTAAACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATRGCATTGAAGGAAATGAC------------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATAGGAGCAGTGAAACTGAGAAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43399.1|gb|MF777658 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43399.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43399.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGAAAAGGGGATACTAAC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGATCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGAAGCGTATTTTATGCAACAGGGGGTATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTGATAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCATACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTGAGAATAGGAGCAGTGAAACTGAGAAAACT- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43679.1|gb|MF777661 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43679.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43679.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAACTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATCAGAGCACG---------- ---------------------GTGGAGAAGGAA--------CTAGAAATG-AAGAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAAC---------TATAGGCTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATCTATCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGCATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCATATTGTAACATTGATAGAGAA AGTTGGAATAAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGA---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATAGT--------------------------------- ---------ACTAAAGAG-------AAAGATGGCATTGAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAACAATGAGAGCGAT---------AAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43074.1|gb|MF777643 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43074.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43074.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAAC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCATAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GAAAATGACATTAAAGGAAATGACACC---------------ACCATCACACTTC CATGTAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACGAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCCGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTGTATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43393.1|gb|MF777653 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43393.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43393.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGGGAATACTAAC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATTAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACATA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTGGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAAGCTTTAGGAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGATACAACAGAACTATTCAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GGAGATGACATTAAAGGAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGGATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43385.1|gb|MF777647 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43385.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43385.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTCTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGGGAATACTAGA---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTGGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------AAAGATGGCATTGAAGAAAATGACACC---------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCGATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGCTAT---------GGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43082.1|gb|MF777646 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43082.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43082.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTAGATATAACACCAATA-GAT-------------- ----GGGGAAGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATCCATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATGGCAGTAAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACGAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCCGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAAGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43390.1|gb|MF777650 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43390.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43390.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGTATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AGTGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGGGGAT------------AAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|43077.1|gb|MF777644 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43077.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43077.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ACCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGGGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAGGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAACAATGAGAGC---------GAGAAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43681.1|gb|MF777662 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43681.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2006] [note=days-post-seroconversion:1369 viral-load:37000 CD4-count:281 CD8-count:1159 gene:env] HIV-1 viroverse:43681.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGGGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAGGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCAAGAATATGAGC---------GAGGGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45663.1|gb|MF777673 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45663.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45663.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTATTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTACACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAGGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTATAAGACAGGTAGCYAAC-AAATTAGGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTGATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATAGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45722.1|gb|MF777681 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45722.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45722.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTGCAGCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACRA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATAGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45654.1|gb|MF777664 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45654.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45654.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTGTACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAAAAATGAGAGC---------GAGAAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45661.1|gb|MF777671 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45661.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45661.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTACACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTGATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATAGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45723.1|gb|MF777682 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45723.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45723.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAATATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT------GC A------------ACTAGTGTAACCACTAGTAAACCCTCA---ACTAATGCAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCCATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AGAGAAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45660.1|gb|MF777670 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45660.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45660.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAGCCACTAATACAACCTCA---ACTACTGCACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GAGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATAGCAGTAAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45659.1|gb|MF777669 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45659.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45659.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTGCTGCACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAGTGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACTTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GGAGATGGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAACAATGGGAGC---------GAGAAAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45656.1|gb|MF777666 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45656.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45656.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTACACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAGGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAACGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GGACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTGATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATAGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45664.1|gb|MF777674 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45664.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45664.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTATGGCAACCACTAGTAATGGCACA---------- ---------------------GTGGAAAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45669.1|gb|MF777679 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45669.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45669.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTATTGCAACCACTAGTAATGGCACA---------- ---------------------GTGGAAAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTGGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45668.1|gb|MF777678 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45668.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45668.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTACACCCACTAGTAATAGCACA---------- ---------------------GTGAAAAAGGGA--------AAAGAAATA-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTGGCAGAAAAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAAAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGAAATTTTTC-T ACTGTAATACAACAGAACTATTCAATAGTACTTGA------AATGGT--------------------------------- ---------ACTAAAGGG-------GGAGATGGCAGTAAAGGAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATATGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45655.1|gb|MF777665 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45655.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45655.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAACTCCTCA---GGAGGGGACCCAGAAGTTGAAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAARGA >gnl|viroverse|45662.1|gb|MF777672 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45662.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45662.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAACTCCTCA---GGAGGGGACCCAGAAGTTGAAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45658.1|gb|MF777668 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45658.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45658.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCATTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTGACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGGATACTAGA---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAAAAATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATAAAACTTTAAGACAAGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCGGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGACGAG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGG AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACTAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45657.1|gb|MF777667 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45657.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45657.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATYGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCCCTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAGCTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGGATACTAGA---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAGGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTGGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAAGAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATAGCAGTAAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45724.1|gb|MF777683 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45724.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45724.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCCCTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAGCTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGGATACTAGA---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAGGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTGGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAAYCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAAGAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATAGCAGTAAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45665.1|gb|MF777675 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45665.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45665.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCATAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATAT----AGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGTGATAAGARGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGGATACTAGA---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGTC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATAGCAGTAAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45670.1|gb|MF777680 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45670.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45670.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTTACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAGGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCCTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGCAGGGGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGGTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACGCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAGGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTGGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAGCAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCCAGAATGTGAGC---------GAGGGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45667.1|gb|MF777677 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45667.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45667.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATAATCTGTAGT-GCTGCAGAACAATTGTGGGTTACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAGGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCCTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGCAGGGGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGGTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACGCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAGGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTGGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAGCAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCCAGAATGTGAGC---------GAGGGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45666.1|gb|MF777676 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45666.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2007] [note=days-post-seroconversion:1734 viral-load:19000 CD4-count:269 CD8-count:1308 gene:env] HIV-1 viroverse:45666.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAACTCCTCA---GGAGGGGACCCAGAAGTTGAAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTAAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44417.1|gb|MF777687 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44417.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44417.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTGCAGCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAGTGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGAGTATTTTATGCAACAGGGGACATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------GATGGT--------------------------------- ---------ACTGAAAGG-------GAAAATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGCGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44424.1|gb|MF777694 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44424.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44424.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTATTGCAACCACTAGTAATGGCACA---------- ---------------------GTGGAAAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAGGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCAGGAATATGAGC---------GAGAGCAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44430.1|gb|MF777697 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44430.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44430.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTARATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTACACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAGGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAGATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAGTGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCAGGAATATGAGC---------GAGAGCAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44429.1|gb|MF777696 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44429.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44429.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTCCACCCACTAGTAATGGCACA---------- ---------------------GTGGAAAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAGATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAGTGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCAGGAATATGAGC---------GAGAGCAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44420.1|gb|MF777690 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44420.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44420.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTACACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAGGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAC-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GGAGATGGCAGTAAAGAAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44436.1|gb|MF777703 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44436.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44436.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTACACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAGGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAC-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATARGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GGAGATGGCAGTAAAGAAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44433.1|gb|MF777700 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44433.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44433.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTGCTGCACCCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAGTGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACTTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTARTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTGCTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GGAGATGGCAGTAAAGAAAATGACACC---------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGAAATGTGAGC---------------AAT- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGAGAAAAAAAGA >gnl|viroverse|44421.1|gb|MF777691 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44421.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44421.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTGGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTCTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAACTACT-------- -------------------GCAACCACTAGTACAACCTCA---ACTACTGCAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATCAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AAGGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAGAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44435.1|gb|MF777702 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44435.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44435.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCATTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGTAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATGCTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGACGGGGGATACTAGA---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAACCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGCCGTA------ATAGGAAAAATAAGAGAAGCACATTGTAACATTAGTAGAGAG AGTTGGGATGAAACTTTAAGACAGGTAGCCAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATATTTAAGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGAAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44415.1|gb|MF777685 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44415.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44415.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTYGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCATTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATG-GAA-------------- ----GGGGATGGGGATACTAGM---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCAGGAATATGAGC---------GAGGGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44431.1|gb|MF777698 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44431.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44431.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCATTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAACCACTAATGATAGCACG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATG-GAT-------------- ----GGGGATGGGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCAGGAATATGAGC---------GAGGGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44414.1|gb|MF777684 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44414.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44414.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAATAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCATTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGGAGGAA--------CTAGGAATG-AAAAACTGCTCCTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGCAGGGGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACGCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAGGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGACGTA------ATAGGAAACATAAGAAAAGCACATTGTACCATTAGTGGACAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCATCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAGCAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCCAGAATGTGAGC---------GAGGGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44425.1|gb|MF777695 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44425.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44425.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTTACAGTCCATTATGGGGTACCTGTGTGGGAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GGGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAAYTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGGCCGTA------ATAGGAAAAATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGAG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAACAATGAGAGC---------GATACAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44434.1|gb|MF777701 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44434.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44434.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTTACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GGGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATTAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAATAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGGCCGTA------ATAGGAAAAATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGAG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAACAATGAGAGC---------GATACAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44432.1|gb|MF777699 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44432.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44432.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------------------------------ACT------AC AATCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAGGGGGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAGGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGGAAATA------ATAGGAAACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAAGG-------GAAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGAAAAAATGAGAGC---------GAGAAAAAT- -----------------------------------GAGACCTTCAGACCAGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44418.1|gb|MF777688 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44418.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44418.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAAGAAAAGAAAAAGGATAACTTTC------GGAC CAGGGAGAGTATTTTATACAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAGTGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGCACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCAGGAATATGAGC---------GAGAGCAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44419.1|gb|MF777689 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44419.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44419.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGACAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44437.1|gb|MF777704 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44437.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44437.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTCGTAGT-GCTGCAGAACAATTGTGGGTTACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AGCCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTAATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGGGTATTTTATGCAACAGGGGACATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGCAAATCCTCA---GGAGGGGRCCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCAATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44422.1|gb|MF777692 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44422.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44422.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AATCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAGCTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAGAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATAGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCACTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44423.1|gb|MF777693 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44423.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44423.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATCTGTAGT-GCTGCAGAACAATTGTGGGTTACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGTCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATATCTTTC------GGAC CAGGGAGAGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACATTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGGAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATCACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGCAGGAATATGAGC---------GAGGGAAAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44416.1|gb|MF777686 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44416.1] [isolation-source=plasma from subject F3] [collection-date=Oct-2007] [note=days-post-seroconversion:1917 viral-load:66000 CD4-count:188 CD8-count:1111 gene:env] HIV-1 viroverse:44416.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------ATTACTATTACATCAACCCCAACTACT------TC AACCCCTGGAACTAAT---GCAACCACTAGTAACACCTCA---ACTACTGCAACCACTAGTAATAGCACA---------- ---------------------GTGGAGAAGGGA--------GAAGAAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATAAGTGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGGATGGGAATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACTCAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAGGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAGATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTC------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGACAG AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAAGAACTCCTCA---GGAGGGGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------TATGGT--------------------------------- ---------ACTGAAGGG-------GAAAATGGCAGTAAAGGAAATGACACC---------------ATCATCACACTTC CATGCAGGATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAACGATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47662.1|gb|MF777706 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47662.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2008] [note=days-post-seroconversion:2105 viral-load:80 CD4-count:203 CD8-count:652 gene:env] HIV-1 viroverse:47662.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCATTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTGATGATCTGTAGT-GCTGCAGGACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTAAATTGCACTAAT---------------------------------------------------ACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTCAATATCACCACAAG CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAATGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGCGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGAATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTTTT------GGAC CAGGGAGCGTATTTTATGCAACAGGGAGCATA------ATAGGAAACATAAGAGAAGCACATTGTAACCTTAGTAGAAAA AGTTGGAATGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAT---AAAACAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAAAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTACTATTAACAAGAGATGGTGGTAACAATGTGACA---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGATTAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGG-GAAAAAAGA >gnl|viroverse|47661.1|gb|MF777705 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47661.1] [isolation-source=plasma from subject F3] [collection-date=Apr-2008] [note=days-post-seroconversion:2105 viral-load:80 CD4-count:203 CD8-count:652 gene:env] HIV-1 viroverse:47661.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAGGAATTATCAGCACTTATGG------------AGATGGGGT------------ACCATGCT CCTTGGCCTGTTAATGATTTGTAGT-GCTGCAGAACAATTGTGGGTCACAGTCCATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATTCTACAGAGAAACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAATATTGGAAAATGTAACAGAATATTTTAACATGTGGAAAAATGACATGG TAGACCAAATGCATGAGGATATAATCAGTTTGTGGGATCAAAGCTTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTAGATTGCACTAAT---------------------------ATTAATATTACATCAACCCCAAATACT------AC AACCACTAACAAT------------------------------AATACTACAGCCACTAATAATAGCATG---------- ---------------------GTGGAGAAGGAA--------CTAGGAATG-AAAAACTGCTCTTTTAATATCACCACAAA CATGAGCGATAAGAAGCAAAAAGAATATGCA-CTTTTTTATAAACTTGATATAACACCAATA-GAT-------------- ----GGGAAGGAGGATACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCCTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAACAATAAGACTTT CAATGGATCAGGACCATGTACAAATGTCAGTACAGTACAATGTACACATGGAATTAAGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTGGCAGAAAAAGAGATAGTAATTAGATCT-GCCAATTTCTCGGATAATGCAAAAATCATAATAGT ACAGCTGAACAAATCTGTAGAAATTAATTGTACAAGACCCAACAACAAGAAAAGAAAAAGGATAACTTTC------GGAC CAGGGAGAGTATTTTATACAACAGGGGGCATA------ATAGGAGACATAAGAAAAGCACATTGTAACATTAGTAGAAAA AGTTGGAGTGAAACTTTAAGACAGGTAGCTAAC-AAATTAAGA------GAACAA---TTTGGA---AAT---AGAGAAA TAATCTTTAGGAAATCCTCA---GGAGGAGACCCAGAAATTGAAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACAGAACTGTTTAATAGTACTTGG------AATGGT--------------------------------- ---------ACTGAAGGG-------ACAGATGGCATTGAAGGAAATGAC------------------ACCATTACACTTC CATGCAGAATAAAGCAAATTATAAACAGATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACAAAT TAATTGTTCATCACAAATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATGTGAGC---------------AAT- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAACTTGAACCRTTA---GGATTAGCACCCACCAGGGCAAGGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42885.2|gb|MF777707 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42885.2] [isolation-source=plasma from subject F4] [collection-date=Nov-2002] [note=days-post-seroconversion:81 viral-load:80 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42885.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATAATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA--AAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42886.2|gb|MF777708 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42886.2] [isolation-source=plasma from subject F4] [collection-date=Nov-2002] [note=days-post-seroconversion:81 viral-load:80 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42886.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-TTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAATTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATATGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42890.3|gb|MF777709 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42890.3] [isolation-source=plasma from subject F4] [collection-date=Nov-2002] [note=days-post-seroconversion:81 viral-load:80 CD4-count: CD8-count: gene:env] HIV-1 viroverse:42890.3 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGRGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47550.1|gb|MF777711 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47550.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2002] [note=days-post-seroconversion:81 viral-load:80 CD4-count: CD8-count: gene:env] HIV-1 viroverse:47550.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCACATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47549.1|gb|MF777710 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47549.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2002] [note=days-post-seroconversion:81 viral-load:80 CD4-count: CD8-count: gene:env] HIV-1 viroverse:47549.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43425.1|gb|MF777712 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43425.1] [isolation-source=plasma from subject F4] [collection-date=May-2003] [note=days-post-seroconversion:261 viral-load:80 CD4-count:577 CD8-count:301 gene:env] HIV-1 viroverse:43425.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ATTTTGGAGTGTACGGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43426.1|gb|MF777713 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43426.1] [isolation-source=plasma from subject F4] [collection-date=May-2003] [note=days-post-seroconversion:261 viral-load:80 CD4-count:577 CD8-count:301 gene:env] HIV-1 viroverse:43426.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCCCTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACGGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTATTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44167.1|gb|MF777714 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44167.1] [isolation-source=plasma from subject F4] [collection-date=May-2003] [note=days-post-seroconversion:261 viral-load:80 CD4-count:577 CD8-count:301 gene:env] HIV-1 viroverse:44167.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGC-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGGGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47336.1|gb|MF777718 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47336.1] [isolation-source=plasma from subject F4] [collection-date=May-2003] [note=days-post-seroconversion:261 viral-load:80 CD4-count:577 CD8-count:301 gene:env] HIV-1 viroverse:47336.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAACTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAATTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAATAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47335.1|gb|MF777717 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47335.1] [isolation-source=plasma from subject F4] [collection-date=May-2003] [note=days-post-seroconversion:261 viral-load:80 CD4-count:577 CD8-count:301 gene:env] HIV-1 viroverse:47335.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAACTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAATTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAATAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47333.1|gb|MF777715 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47333.1] [isolation-source=plasma from subject F4] [collection-date=May-2003] [note=days-post-seroconversion:261 viral-load:80 CD4-count:577 CD8-count:301 gene:env] HIV-1 viroverse:47333.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ATTTTGGAGTGTACGGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47334.1|gb|MF777716 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47334.1] [isolation-source=plasma from subject F4] [collection-date=May-2003] [note=days-post-seroconversion:261 viral-load:80 CD4-count:577 CD8-count:301 gene:env] HIV-1 viroverse:47334.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ATTTTGGAGTGTACGGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45082.1|gb|MF777729 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45082.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45082.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------GGCACTGGGACGAGCCAA------------------GCTATAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45077.1|gb|MF777724 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45077.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45077.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAGTTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCGG------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATGGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45080.1|gb|MF777727 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45080.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45080.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACGCATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTAAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------CAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45076.1|gb|MF777723 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45076.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45076.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGCAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTCTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45081.1|gb|MF777728 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45081.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45081.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGGCGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45079.1|gb|MF777726 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45079.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45079.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTYTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45074.1|gb|MF777721 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45074.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45074.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45073.1|gb|MF777720 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45073.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45073.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------TCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45072.1|gb|MF777719 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45072.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45072.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45088.1|gb|MF777732 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45088.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45088.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45078.1|gb|MF777725 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45078.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45078.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45083.1|gb|MF777730 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45083.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45083.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45075.1|gb|MF777722 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45075.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45075.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45086.1|gb|MF777731 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45086.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:45086.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47306.1|gb|MF777733 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47306.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47306.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTATACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47524.1|gb|MF777734 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47524.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47524.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACCTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------GGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCCTTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47544.1|gb|MF777741 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47544.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47544.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGACTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47543.1|gb|MF777740 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47543.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47543.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47542.1|gb|MF777739 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47542.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47542.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGGCGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47541.1|gb|MF777738 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47541.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47541.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGTGCCAAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGATGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47540.1|gb|MF777737 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47540.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47540.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GACC------GGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAGATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47539.1|gb|MF777736 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47539.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47539.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAAGGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47538.1|gb|MF777735 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47538.1] [isolation-source=plasma from subject F4] [collection-date=Nov-2003] [note=days-post-seroconversion:444 viral-load:1500 CD4-count:761 CD8-count:507 gene:env] HIV-1 viroverse:47538.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCACTGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC TAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44655.1|gb|MF777744 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44655.1] [isolation-source=plasma from subject F4] [collection-date=May-2004] [note=days-post-seroconversion:627 viral-load:1000 CD4-count:453 CD8-count:256 gene:env] HIV-1 viroverse:44655.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCAATGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44654.1|gb|MF777743 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44654.1] [isolation-source=plasma from subject F4] [collection-date=May-2004] [note=days-post-seroconversion:627 viral-load:1000 CD4-count:453 CD8-count:256 gene:env] HIV-1 viroverse:44654.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCAATGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAACGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44649.1|gb|MF777742 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44649.1] [isolation-source=plasma from subject F4] [collection-date=May-2004] [note=days-post-seroconversion:627 viral-load:1000 CD4-count:453 CD8-count:256 gene:env] HIV-1 viroverse:44649.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------TGCAAGGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47403.1|gb|MF777745 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47403.1] [isolation-source=plasma from subject F4] [collection-date=May-2004] [note=days-post-seroconversion:627 viral-load:1000 CD4-count:453 CD8-count:256 gene:env] HIV-1 viroverse:47403.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAGAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------AGTAATTTGACTTGTCCTAATAACACTTC GAAC------GGCACTGGGACGAGCCAA------------------GCTATAAGCAGTACTCATTTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTGGCATAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---CAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAATAATACAAGGAAAGGTATACATATG------GGGC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGA------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44846.1|gb|MF777752 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44846.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44846.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGATAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44851.1|gb|MF777757 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44851.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44851.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGGGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44848.1|gb|MF777754 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44848.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44848.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGGGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44845.1|gb|MF777751 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44845.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44845.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACARTTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45071.1|gb|MF777764 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45071.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:45071.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAACAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44860.1|gb|MF777762 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44860.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44860.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAAAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44859.1|gb|MF777761 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44859.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44859.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTATGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44850.1|gb|MF777756 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44850.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44850.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44849.1|gb|MF777755 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44849.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44849.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44844.1|gb|MF777750 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44844.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44844.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44842.1|gb|MF777748 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44842.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44842.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44847.1|gb|MF777753 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44847.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44847.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44858.1|gb|MF777760 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44858.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44858.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44856.1|gb|MF777759 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44856.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44856.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44840.1|gb|MF777746 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44840.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44840.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAATAACRCTTC GACC------TGCAATGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAA- ---------------------GGAATAGAGAAA--------GGAGAGGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAGATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGGGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44854.1|gb|MF777758 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44854.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44854.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAATAACACTTC GACC------TGCAATGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAA- ---------------------GGAATAGAGAAA--------GGAGAGGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAGATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGGGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44843.1|gb|MF777749 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44843.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44843.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAATAACACTTC GACC------TGCAATGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAA- ---------------------GGAATAGAGAAA--------GGAGAGGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45070.1|gb|MF777763 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45070.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:45070.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCAAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAATAACACTTC GACC------TGCAATGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAA- ---------------------GGAATAGAGAAA--------GGAGAGGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44841.1|gb|MF777747 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44841.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:44841.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCGCAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GCTACAAGCAGTGCTCAATTGAATGGTCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT TAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGAG-------TCAAAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47685.1|gb|MF777772 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47685.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47685.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAATAACACTTC GACC------TGCAATGGGACGAGCCAA------------------GCTACAAGCAGTACTCAATTGAATGGCCCCAAA- ---------------------GGAATAGAGAAA--------GGAGAGGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47680.1|gb|MF777768 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47680.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47680.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTGTCCTAATAACACTTC GGCC------TGCACTGGGACGAGCCAA------------------GCTACAAACAGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTGGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATAATGGAGAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47686.1|gb|MF777773 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47686.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47686.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47677.1|gb|MF777765 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47677.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47677.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG C---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47681.1|gb|MF777769 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47681.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47681.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACCCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47682.1|gb|MF777770 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47682.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47682.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47683.1|gb|MF777771 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47683.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47683.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47678.1|gb|MF777766 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47678.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47678.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47679.1|gb|MF777767 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47679.1] [isolation-source=plasma from subject F4] [collection-date=May-2005] [note=days-post-seroconversion:990 viral-load:8700 CD4-count:384 CD8-count:292 gene:env] HIV-1 viroverse:47679.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAAAAGAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GGTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAGTAGTAATAGTAGG---AAATATAGATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCAAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAGGAGAAATAGTTACA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAGG-------TCAAAGGACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42791.1|gb|MF777788 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42791.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42791.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACCTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAA- ---------------------GGAATAGAGAAA--------GGAGAGGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAGAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43030.1|gb|MF777793 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43030.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:43030.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAATACTCAATCGAATGGCCCCAAG- ---------------------GTGATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCGCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------TCAGAGAACACTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATCACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43032.1|gb|MF777795 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43032.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:43032.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAA- ---------------------GGAATAGAGAAA--------GGAGAGGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTTAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGGAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGCAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAACCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTAAAGAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGGATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42786.1|gb|MF777783 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42786.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42786.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAAG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGCAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAACCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTAAAGAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42780.1|gb|MF777777 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42780.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42780.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAAG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGCAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAACCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTAAAGAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42785.1|gb|MF777782 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42785.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42785.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACCTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAAG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGCAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAACCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTAAAGAG-------GCAAAGAATATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42794.1|gb|MF777791 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42794.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42794.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTGATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGAGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGAG-------TCAAAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAGGCAATATATGCCCCTCCTATCAGGGGRCAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42793.1|gb|MF777790 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42793.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42793.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAATAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGAG-------TCAAAGAACATTACA------GAAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCGGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42784.1|gb|MF777781 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42784.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42784.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAACGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGAG-------TCAAAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43033.1|gb|MF777796 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43033.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:43033.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGYCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGAG-------TCAGAGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42787.1|gb|MF777784 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42787.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42787.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------CCAAAGAACATTACAGAAAGAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTGTATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42388.1|gb|MF777776 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42388.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42388.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTTTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAAAATTT CAATGGAACAGGACCATGCGAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAGAGAACATTACA------GGAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42790.1|gb|MF777787 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42790.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42790.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATATGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------CCAGAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42387.1|gb|MF777775 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42387.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42387.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTGGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAAG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------CCAGAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42386.1|gb|MF777774 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42386.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42386.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAGAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------CCAGAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42783.1|gb|MF777780 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42783.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42783.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATATGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------CCAGAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43031.1|gb|MF777794 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43031.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:43031.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACGTGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACAAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAGAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42781.1|gb|MF777778 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42781.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42781.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACAAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------CCAGAGAACATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43029.1|gb|MF777792 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43029.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:43029.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACAAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTAAAAAG-------TCAGAGAACACTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42782.1|gb|MF777779 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42782.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42782.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTGAAAAG-------CCAAAGAACATTACAGAAAGAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATCACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42788.1|gb|MF777785 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42788.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42788.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGCTTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTAAAAAG-------CCAAAGAACATTACAGAAAGAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTGGTAACAATTGAACCATTA---GGAGTAGCRCCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42789.1|gb|MF777786 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42789.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42789.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTGTCCTAAT-------- -ACC------TGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGCTTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTAAAAAG-------CCAAAGAACATTACAGAAAGAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42792.1|gb|MF777789 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42792.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2006] [note=days-post-seroconversion:1326 viral-load:6600 CD4-count:294 CD8-count:237 gene:env] HIV-1 viroverse:42792.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGCGGC------------ATGATGCT CCTTGGAATGATGATGATGTGTAGT-GCTAAAGAAAAATCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAGAGAGCATTACA------GAAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42938.1|gb|MF777811 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42938.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42938.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGTT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------YCAAGGAACATTACA------GAAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42880.1|gb|MF777808 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42880.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42880.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAGA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTACTAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAGGATAAGAATTT CAATGGAACAGGACCATGCAAAAAAGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTAAAAAG-------CCAGAGAACATTACAAAAGGAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42943.1|gb|MF777814 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42943.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42943.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTGGGAATGTTGATGATGTGTAGT-GCTAAAGAAGATTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATAGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGTTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGAG-------TCAAAGAACATTACA------GAAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42937.1|gb|MF777810 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42937.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42937.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATAGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTGATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTACTAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAAGCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATAATACTAAAAAG-------CCAGAGAACATTACAAAAAAAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42879.1|gb|MF777807 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42879.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42879.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATGAGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAAG---AAATATATATTAATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAATAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAACAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACAGTACA------GGAGGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATCTATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42850.1|gb|MF777803 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42850.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42850.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTCGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAATAATAGTAGG---AAATATATACTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGCGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGACGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42848.1|gb|MF777802 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42848.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42848.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGARGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATAATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GAAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACAAATA-GATGATAATGAAAATAG T---AATAATATTAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCTAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42841.1|gb|MF777799 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42841.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42841.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATAATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GAAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACAAATA-GATGATAATGAAAATAG T---AATAATATTAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCTAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42854.1|gb|MF777805 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42854.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42854.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATGAAAATAG T---AATAATAATAGTAAGAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCAACGAACATTACAGAAAAAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41185.1|gb|MF777797 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41185.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:41185.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GCTACAAACAATACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGGAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AACAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAGGAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGTTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41187.1|gb|MF777798 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41187.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:41187.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGCGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GAAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAGGAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACGA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGTTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42944.1|gb|MF777815 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42944.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42944.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATAATGTGTAAT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT------------------GCTAATTTGACTAGTCCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGT---AATAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACCCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACATTACA------AAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42933.1|gb|MF777809 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42933.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42933.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATGAGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGATATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAATAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAAG-------CCAACGAACATTACAGGAAAAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAAACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42856.1|gb|MF777806 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42856.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42856.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGG-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATGAGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAAG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCAACGAACATTACAGAAAAAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATCTATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42942.1|gb|MF777813 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42942.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42942.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATAGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTGATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAAG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAAATGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42951.1|gb|MF777816 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42951.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42951.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGTTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTCGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCAGAGAACAATACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42844.1|gb|MF777801 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42844.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42844.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGAGGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAAAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGACA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTAT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAGAGAACATTACA------GAT------------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTAAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42842.1|gb|MF777800 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42842.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42842.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGACA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAGAGAACATTACA------GAT------------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGGCT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42852.1|gb|MF777804 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42852.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42852.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGAGGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGACA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAGAGAACATTACA------GAT------------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42939.1|gb|MF777812 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42939.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2007] [note=days-post-seroconversion:1689 viral-load:9300 CD4-count:184 CD8-count:179 gene:env] HIV-1 viroverse:42939.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCCTATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGACA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---AATAATAATAGTAATAGTAGG---AAACATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATACTGGAAAG-------TCAGAGAACATTACA------GAT------------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44581.1|gb|MF777831 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44581.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44581.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATAAAAATAG A---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAATAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAACTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GACAGG---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGAACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAATAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44578.1|gb|MF777828 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44578.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44578.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGGCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATAAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAGGT---------GAA---CTCATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCGCGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43669.1|gb|MF777817 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43669.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:43669.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-CAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATGAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GCTTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------TCAACGAACATTACAGGAAAAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44807.1|gb|MF777834 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44807.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44807.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-CAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATGAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GCTTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------TCAACGAACATTACAGGAAAAGAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44814.1|gb|MF777836 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44814.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44814.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTGATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-CAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATAAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44518.1|gb|MF777822 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44518.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44518.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GAAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATAAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGTTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTGAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCTAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTG---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43677.1|gb|MF777819 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43677.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:43677.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-CAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGTTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTGAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCTAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTG---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44583.1|gb|MF777833 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44583.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44583.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTCGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-CAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGTTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTGAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCTAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTG---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44809.1|gb|MF777835 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44809.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44809.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-CAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-AATGATAATGAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGTTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTGAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCTAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TAACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTG---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43680.1|gb|MF777820 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43680.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:43680.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAGCACTTC GACC------GGCAATAGGACTAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAAAGGAAATAG T---AGTAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACCACAGGGCTATTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GAAAGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44520.1|gb|MF777824 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44520.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44520.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTACTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATGAGACGRGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAATA-CAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGGAAATAG T---AGTAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44521.1|gb|MF777825 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44521.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44521.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAATATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATAGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGGAAATAG T---ACTAATAATAATAAAAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACTCATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44579.1|gb|MF777829 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44579.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44579.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAT---------------------------------------------------AATACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GATGATAATGAGAATAG T---ACTAAGAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACACTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44519.1|gb|MF777823 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44519.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44519.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GATGATAATAAGAATAG TACTAATAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTAAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGRC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCC--------------------------------------------------TAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAACAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACAGTACA------GGAGAT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT ---------TTCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44526.1|gb|MF777826 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44526.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44526.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTACTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AGCACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTACACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GGTGATAAAGGAAATAG T---AGTAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCAGAGAACATTACA------GGAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAAAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43926.1|gb|MF777821 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43926.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:43926.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-CAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GGTGATAATGAGAATAG T---ACTAATAATAAT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAACA GCTTGGAATAACACCTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACGCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCAGAGAACATTACA------GGAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGCTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44582.1|gb|MF777832 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44582.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44582.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAGCATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GACC------GGCAATGGGACGGGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-AATGATAATGAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATARGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAGATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACATTACA------GACAGG---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCRCGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43672.1|gb|MF777818 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43672.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:43672.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTACTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAGATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTAACCAGTCCTAATAATACTTC GACC------GGCAATGGGACGGGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTACATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GAGGATAATGGAAATAG T---ACTAATAATAATAAAAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGGTTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCAGAGAACATTACA------GGAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44580.1|gb|MF777830 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44580.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44580.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTACTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTAACTAGTCCTAATAATACCTC GACC------GGCAATGGGACGGGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGGAAATAG T---AGTAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGTCTGTAGTAATTAATTGTACAAGACCCAGCARCAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GCTTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCAGAGARCATTACA------GGAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAACATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44576.1|gb|MF777827 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44576.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2008] [note=days-post-seroconversion:2055 viral-load:7800 CD4-count:219 CD8-count:316 gene:env] HIV-1 viroverse:44576.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GATGATAATAAGAATAG TACTAATAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTAAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAACAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACAGTACA------GGAGAT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44243.1|gb|MF777851 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44243.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44243.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTTTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTGCACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GAGGATAATGAGAATAG T---ACTAATAGTAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAACTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACACGCACATTGTAACCTT--AAAAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACATTACA------GGAGGT---------GAA---ACCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCTCATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44236.1|gb|MF777844 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44236.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44236.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-GATGATAATAAGAATAG TACTAATAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTAAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACATTACA------GGAGGT---------GAA---ACCATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAGTATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44250.1|gb|MF777858 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44250.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44250.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCCAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATATTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAT--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATGAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-GATGATAATAAAAATGG T---AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACATTACA------GGAGGT---------GAA---ACCATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAGTATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44235.1|gb|MF777843 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44235.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44235.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCCAGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATATTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATATGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAT--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATGAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-GATGATAATAAAAATGG T---AAAAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACATTACA------GGAGGT---------GAA---ACCATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAGTATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44229.1|gb|MF777837 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44229.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44229.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGGGATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATATTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GATGGT----------- ----AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTATAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAACAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACAGTACA------GGAGAT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCTCATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44248.1|gb|MF777856 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44248.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44248.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGARAATTTTAACATGTGGAAAAATAACATGG CGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AATAATCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATACAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GATGATAATGAAAAGGG T---AATAATAATAGTGATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------TCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44234.1|gb|MF777842 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44234.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44234.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACCGAT---------------------------------GCTAATTTGACTTTTCCTAATAACACTTC AAAC---------------------------------------------------AATACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GATGGT----------- ----AATAATAATAGTAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------TCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44244.1|gb|MF777852 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44244.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44244.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTGCACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GAGGATAATGAGAATAG T---ACTAATAGTAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAACTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------TCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCGGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44239.1|gb|MF777847 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44239.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44239.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACCCATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCCAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTGCACAATTGAATGGC-CCAAG- ---------------------GTAATAGAAAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GAGGATAATGAGAATAG T---ACTAATAGTAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------TCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44242.1|gb|MF777850 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44242.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44242.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAATCCTAATAACACTTC GAAC------GGCAATGAGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAT--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---GAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGT--TGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTATAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCCAAAACAATAATAGT ACAGCTGAATGATTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGCAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACCCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAACAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAGGAACAGTACA------GGAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCTCATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAAGGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44251.1|gb|MF777859 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44251.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44251.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATACGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCGAATAGCACTTC GACC------AGCAATAGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---GAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCCAAAACAATAATAGT ACAGCTGAATGATTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGCAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACCCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGT---------GAACCACCCATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGGCAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44245.1|gb|MF777853 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44245.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44245.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACAT----------------------- ------------------------------------------------------------AATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCCTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCATAATAGCACTTC GACC------GACAATAGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCAGAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCCAAAACAATAATAGT ACAGCTGAATGATTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGCAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACCCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGT---------GA-CCACCCATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44230.1|gb|MF777838 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44230.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44230.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCCTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAGCACTTC GACC------GACAATAGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCAGAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTATAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCCAAAACAATAATAGT ACAGCTGAATGATTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GCTTGGAATAACACTTTAAGAGCAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACCCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGT---------GAACCACCCATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGGCAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44247.1|gb|MF777855 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44247.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44247.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACC------GGCAAGGGGACGAGCCAA------------------GATACAAACAGTACTCATTTGCATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATG-GATGATACTGAAAATAG T---ACTAATAATAGT---AGTAGG---AGATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGTCTGTAGTAATTAATTGCACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACGCTTTAAGAAAAATAGCTATA-AAATTAAAG------AAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------TCATGGAACATTACA------GAACGT---------GAA---CTCATTACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAAAATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAATAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44241.1|gb|MF777849 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44241.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44241.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC C---------GGCAATGAGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATG-GATGATAATGAGACTAG T---ACTAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAAGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GAAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AAGGGTACTGAAAAG-------CCAGAGAACATTACA------GGAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGAACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44232.1|gb|MF777840 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44232.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44232.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGTCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAGCACTTC GACC------AGCAATAGGACGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAGACTAG T---ACTAATAATAATAATAGTAGG---AAATATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAAGAGGCTGTAGCAATTAATTGTATAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAAAAATAGTTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGT---------GAACCACCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGGCAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44233.1|gb|MF777841 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44233.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44233.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGCGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAATCCTAATAACACTTC GAAC------GGCAATGAGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATG-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACGCTTTAAGAAAAATAGCTATA-AAATTAAAG------AAACAA---TTTGGG---AGAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCACATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAATAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44246.1|gb|MF777854 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44246.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44246.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGACATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT------------------GCTAATTTGACTAGTCCTAATTTGACTAGTCCTAATAACACTTC GATC------GGCAATGGGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATATCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATG-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAGGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCGACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------CCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44237.1|gb|MF777845 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44237.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44237.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GAAC------GGCAATGGGACGGGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAGACTAG T---ACTAATAATAATAATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGATTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACGTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------CCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44249.1|gb|MF777857 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44249.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44249.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAGCATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAATCCTAATAACACTTC GAAC------GGCAATGAGACGAGCCAA------------------GCTACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GAGTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAG TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------TCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCACATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44240.1|gb|MF777848 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44240.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44240.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAACGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGGAAATGTGACAGAAAATTTTAACATGTGGAAAAATAGCATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTGACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GGCC------GGCAATGGGACGGGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GGTGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAACTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACCCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------TCATGGAACATTACA------GACAGG---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAAAATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44238.1|gb|MF777846 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44238.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44238.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAGGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAGCACTTC GACC------GACAATAGGACGAGCCAA------------------GATACAAATAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AATTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGCAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTATTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44231.1|gb|MF777839 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44231.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2009] [note=days-post-seroconversion:2419 viral-load:1250 CD4-count:213 CD8-count:347 gene:env] HIV-1 viroverse:44231.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAGCATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAA---CACTTC GAAC------GGCAATGGGACGGGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTATTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCATGGAACATTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44588.1|gb|MF777864 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44588.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44588.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTCATTTGACTCGTCCTAATAACACTTT GACC------GACAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAATTGCTCTTTCAATGTCTCCAGAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTGGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------GAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAGTACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAAGAACCGTACA------GGAGGT---------GAC---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGTAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44933.1|gb|MF777873 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44933.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44933.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCCTTGGAGTGTACTGAT---------------------------------GCTAAGTTGATTAGTCCTAATAGCACTTC GACC------GACAATAGGAAGAGCCAG------------------GCTGCAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAATTGCTCTTTCAATGTCTCCAGAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTGGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGTA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------GAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAGTACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAAGAACAATACA------GGAGGT---------GAC---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGTAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44593.1|gb|MF777869 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44593.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44593.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAGTTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCGGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCCTTGGAGTGTACTGAT---------------------------------GCTAATTTGATTAGTCCTAATAGCACTTC GACC------GACAATAGGAAGAGCCAG------------------GCTGCAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAATTGCTCTTTCAATGTCTCCAGAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGAATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGGCTGTGGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACACTTTAAGAAAAATAGCTATA-AAATTAAGG------GAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAGTACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------TCAAAGAACCGTACA------GGAGGT---------GAC---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGTAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44595.1|gb|MF777871 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44595.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44595.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTATGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTAGGACGAGCCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AATTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTGATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGGG-------CCATGGAACAGTACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGCTCATCAAATATTACCGGGTTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44937.1|gb|MF777877 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44937.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44937.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGTCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGACGAGCCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTATCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAAGAGGCTGTAGCAATTAATTGTATAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGCAGTAGCTATA-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCGATACAACAGTGCTATTTAGTAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCATGGAACATTACA------GACAGT---------GAACCACCCATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGAACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44587.1|gb|MF777863 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44587.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44587.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGARTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGACGAGCCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTATCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGATATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAAGAGGCTGTAGCAATTAATTGTATAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGCAGTAGCTATA-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTATTTAGTAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCATGGAACATTACA------GACAGT---------GAACCACCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGGCAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAATAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44585.1|gb|MF777861 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44585.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44585.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGACGAGCCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTATCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGATATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAAGAGGCTGTAGCAATTAATTGTATAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGCAGTAGCTATA-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGGAACTGTAATGTACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGCAATACAACAGTGCTATTTAGTAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAG-------CCATGGAACATTACA------GACAGT---------GAACCACCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGGCAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAATAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44591.1|gb|MF777867 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44591.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44591.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT------------------GCTAATTTGACTAGTCCTAATTTGACTAGTCCTAATAATACTTC GATC------GGCAATGGGCCGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTTCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATG-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATGACGCTTTAAGAGGAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAGTAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAT-------CCAACGAACATTACAGGAAAAGAAAGT---------GAACCACCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT CTACTGTTCATCAAATATTACTGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44941.1|gb|MF777881 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44941.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44941.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTAAGACGAGACAA------------------GCTGCAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AATTATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAGGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTTTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAACTGAATAAGACTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACGCTTTAAGAAACATATCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGCAATACAACAGAGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGCGCCAAAGAG-------CCAGAGAACAGTACA---------------------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44596.1|gb|MF777872 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44596.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44596.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGACGAGCCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AATTATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGATAAATGGCAGTCTAGCAGAAGAAGAGGTAATAATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAATAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GGTTGGAATAACGCTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACGCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTAATAGTACT---------------------TGG------------------------ ---GATGGTAAGGAAACG-------CCAGAGAACAATACA---------------------GAA---CTCATTACACTCC AATGCAGAATAAAACAAATAGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAATAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44594.1|gb|MF777870 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44594.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44594.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGGCGAGCCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTACTAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGATATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTTAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGTCGACGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAGGAGGCTGTAGAAATTACTTGTACAAGACCCAGTAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAAAGCTTTAAGAGGAACAGCTATG-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44589.1|gb|MF777865 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44589.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44589.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATACGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGRTCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGACGAGCCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAGC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTATCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAACTGAATAAGGCTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GGTTGGAATAACGCTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAACTGTTTAATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44935.1|gb|MF777875 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44935.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44935.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTCAGACGAGCCAA------------------ACTACAAACAGTACTCAATCAAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTATCCACAAT AGAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATTAAACCAGTAGTGTCAACTCAGTTGT TGGTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCCAAAACAATAATAGT ACAGCTGAATGATTCTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA AAGTGGAATAATACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCCTCAAACCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCATGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATAGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAATAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44939.1|gb|MF777879 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44939.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44939.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTCATTTGACTCGTCCTAATAACACTTT GACC------GACAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAGTAATAGT---AGTAGG---AATTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAGAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAGGAGGCTGTAGAAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGCAGAGCA AATTGGAATAACGCTTTAAGAAAAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACCCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ACTGCAATACAACAGAACTGTTTAATAGTACT---------------------TGG------------------------ ---AATGATATTGGAGGG-------CCAGAGAACATTACA------GGAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGGCAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGAGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44584.1|gb|MF777860 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44584.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44584.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACCTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT------------------GCTACTTTGACTAGTCCTAATTTGACTAGTCCTAATAACACTTC GAAC------GGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATTGAATGGCCCCAGG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---GAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAAGAATTAATTGTACAAGACCCAGTAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACGCTTTAAGAGGAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGRGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACC---------------------TGG------------------------ ---AATGGCACTAAAGAG-------CCAGAGAACAGTACA---------GGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT CTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGAGATT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44938.1|gb|MF777878 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44938.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44938.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTCGTCCTAATAACACTTC GACT------GGCAATGGGATGAGCCAA------------------GATACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---GAATATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAAGAATTAATTGTACAAGACCCAGTAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATA---------------GCACATTGTAACCTTAGTAAAGCA GATTGGAATAACGCTTTAAGAGGAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAATAGTACC---------------------TGG------------------------ ---AATGGCATTAAAGAG-------CCAGAGAACAGTACA---------GGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT CTACTGTGCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAATAGCACCCACCACGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44936.1|gb|MF777876 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44936.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44936.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTAAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAC---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-GATGAT----------- ----AATAATAATAGTGATAGTAGG---AAATATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACGCTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG------AATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGCAATACAACAGGGCTGTTTGATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACAGTACA------GGAGGT---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44934.1|gb|MF777874 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44934.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44934.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGG T---AATAATAATAGTAATAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACCCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGAAATA------ATAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGCAATACAACAGGGCTGTTTGATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACAGTACA------GGAGGT---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGRGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44590.1|gb|MF777866 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44590.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44590.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAACGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGG T---AATAATAATAGTAATAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACCCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCCAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGAAATA------ATAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGCAATACAACAGGGCTGTTTGATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACAGTACA------GGAGGT---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44940.1|gb|MF777880 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44940.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44940.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAAGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-AATGATAATGAAAATGG T---AATAATAATAGTAATAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAGCGCTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTGATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACATTACA------GGAGGT---------GAA---AACATTACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44586.1|gb|MF777862 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44586.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44586.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACCTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTACTAAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-AATGATAATGAAAATGG T---AACAATAATAGTAATAGTAAGAATAAGTATATACTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAACTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGAATGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACGCTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG------AATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTGATAGTATT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACATTACA------GGAGGT---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44592.1|gb|MF777868 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44592.1] [isolation-source=plasma from subject F4] [collection-date=Apr-2010] [note=days-post-seroconversion:2788 viral-load: CD4-count:193 CD8-count:304 gene:env] HIV-1 viroverse:44592.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAATCTTGATGTAGTACCAATA-AATGATAATGAAAATGG T---AATAATAATAGTAATAGTAAGAATAAGTATATACTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAACTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGAATGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACGCTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG------AATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGGGCTGTTTGATAGTATT---------------------TGG------------------------ ---AATGGTACTGAAAGG-------CCAGAGAACATTACA------GGAGGT---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATRTGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAGATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44470.1|gb|MF777893 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44470.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44470.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGCGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTGCCCACAGATCCCAGCCCACAAGAAATAGAAGTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAGT------------AAGACGAGACAA------------------GATACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GAAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AATTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGATAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGGATGAGTCTGTAGAAATTAAGTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GATTGGAATAACGCTTTAAGAAAAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAGGCTGTTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGAAGAG-------GCAGATAACAGTACA------GGAGGT---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGCTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44467.1|gb|MF777890 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44467.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44467.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAGGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTG-GAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAGCACTTC GACC------AGCAATAGAAAGAGCCAA------------------GCTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGGAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCAGAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAAGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAGGAGGCTGTAGAAATTAATTGTGCAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA AAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAAG------GAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44478.1|gb|MF777901 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44478.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44478.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTYTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATAYGATACAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACCGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGAATAGTCCTAATACCACTTC GACC------AGCAATAGGACGAGCCAA------------------GCTATAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGGAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCAGAAT AGAAGGAAGTAGGTGGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAATTGTAATACCTCAGTCGTT-ACACAAGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAGGAGGCTGTAGAAATTAATTGTGCAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA AAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAAG------GAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44461.1|gb|MF777884 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44461.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44461.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAGCATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGGCTAGTCCTAATAACACTTC GAAC------GGCAATGGGAAGGGCCAA------------------GCTGCAAACAGTACTCAATCAAATGGCCCCAAG- ---------------------GCAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAGACTAG T---ACTAATAATAATAATAGTAGG---AAATATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAAGAATTAATTGTACAAGACCCAGTAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACGCTTTAAGAGGAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44480.1|gb|MF777903 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44480.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44480.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ACTAGGAAGAATTGGCAAAGCTCATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAGCATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGGCTAGTCCTAATAACACTTC GAAC------GGCAATGGGAAGGGCCAA------------------GCTGCAAACAGTACTCAATCAAATGGCCCCAAG- ---------------------GCAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAGACTAG T---ACTAATAATAATAATAGTAGG---AAATATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAAGAATTAATTGTACAAGACCCAGTAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACGCTTTAAGAGGAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44465.1|gb|MF777888 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44465.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44465.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTAGTCCTAATAACACTTC GAAC------GGCAATGAGATGAGCCAA------------------GATACAAACAGCACTCAATCAAATGGCCCCAAG- ---------------------GCAATAGAGGAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAGACTAG T---ACTAATAATAATAATAGTAGG---AAATATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAACTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TCACTGTTCATCAAATATTACCGGACTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAATGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44471.1|gb|MF777894 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44471.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44471.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCCTGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAATTTGATTAGTCCTAATAACACTTC AAACAGCAATAGCAATAGGACGAGCCAA------------------GATATAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GCAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATAATGAGACTAG T---ACTAATAATAATAATAGTAGG---AAATATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGGCTGTAGCAATTAACTGTACAAGACCCAGCAACAATACAAGGAAGGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TCACTGTTCATCAAATATTACCGGACTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44464.1|gb|MF777887 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44464.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44464.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGGCGAGCCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTACTAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAGAAATAG T---ACT---AATAATAGTAGTAGG---AACTATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGATATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTTAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAAGAGGCTGTAGCAATTAATTGTATAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GGTTGGAATAACGCTTTAAGAGAAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAGTAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAT-------CCAACGAACATTACAGGAAAAGAAAGT---------GAACCACCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT CTACTGTTCATCAAATATTACTGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44476.1|gb|MF777899 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44476.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44476.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ACCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTGATTTGACTAGTCCTAATAACACTTC GAAC------GGCAATGGGACAGGCCAA------------------GCTGCAAACAGCACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGATATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TAGTAAATGGCAGTCTAGCAGACGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAGGAGGCTGTAGAAATTACTTGTACAAGACCCAGTAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGCAGTAGCTATA-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGACTGCTACTAACAAGAGATGGTGGTCCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44462.1|gb|MF777885 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44462.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44462.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAGGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTACAATTAACTCCACTCTGTGTT GTTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGGCGAGCCAA------------------ACTACAAACAGTACTCGATCGAATGGCCCCAAG- ---------------------GTACTAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATATTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGATATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTTAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCCGACGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAGGAGGCTGTAGAAATTACTTGTACAAGACCCAGTAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAAAGCA GGTTGGAATAAAGCTTTAAGAGGAACAGCTATG-AAATTAAAG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAACTGTTTAATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACGGG---------GAA---CTCATCACACTCC AATGTAGAATAAAACAAATTATAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGGCAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44472.1|gb|MF777895 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44472.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44472.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTYTGGGCCACACATGCCTG TGTGCCCACAGATCCCAGCCCACAAGAAATAGAAGTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTATACAATTAACTCCACTCTGTGTT GCTTTGGAGTGTACTGAT---------------------------------GCTAGTTTGACTAGTCCTAATAGCACTTC GAAC------GGCAGTGGGACGAACCAA------------------ACTACAAACAGTACTCAATCGAATGGCCCCAAG- ---------------------GTAATAGAGACC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGGAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AATTATATATTGATAAATTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAAGAGGCTGTAGCAATTAATTGTATAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------GTAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA AAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAAG------GAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAGCTGTTTAATAGTATT---------------------TGG------------------------ ---AATGATACTGAAAAA----------TGGAATAATACTGAAGGGTCAAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATAGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44477.1|gb|MF777900 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44477.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44477.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGTT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT------------------GCTGATTTGACTAGTCCTAATTTGACTGGTCCTAATAGCACTTC GATC------AGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATTGAATGGTCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AAAAGGAAGTAAGTTACATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGATAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATGTTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAGACTGTAATAATTAATTGTGCAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA AAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAACTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAAACCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAGTTTTTC-T ACTGCAATACAACAGTGCTATTTAATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------GCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGGCAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGAGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44469.1|gb|MF777892 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44469.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44469.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAAGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT------------------GCTGATTTGACTAGTCCTAATTTGACTGGTCCTAATAGCACTTC GATC------AGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCTCCACAAT ACAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGACAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATGTTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAAGAGGCTGTAGCAATTAATTGTATAAGACCCAGCAACAATACAAGGAAAAGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGGGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCGATACAACAGTGCTATTTAATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAAAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT CTACTGTTCATCAAATATTACTGGGCTGCTACTAACAAGAGATGGTGGTTTAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44463.1|gb|MF777886 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44463.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44463.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAAT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAGAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT------------------GCTGATTTGACTAGTCCTAATTTGACTGGTCCTAATAGCACTTC GATC------AGCAATGGGACGAGCCAA------------------GATACAAACAGTACTCAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAC--------GGAGAAATA-AAAAACTGCTCTTTCAATGTCTCCACAAT ACAAGGAAGTAAGTTGCATAAAGAATATGCA-CTCTTTTATAAACTTGATGTAGTACCAATA-GATGATGACAAAAATAG T---ACTAATAATAGT---AGTAGG---AACTATATGTTGATAAGTTGTAATACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAAAGAGGCTGTAGCAATTAATTGTATAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGCCATA------ATAGGAGATATAAGACAAGCACATTGTAACCTTAGTAGAGCA GAGTGGAATAACACTTTAAGAGAAGTAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGGGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCGATACAACAGTGCTATTTAATAGTACT---------------------TGG------------------------ ---AATGGTACTGGAAAG-------CCATGGAACAATACA------GACAGT---------GAA---CCCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGCTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGTTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGGTCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44466.1|gb|MF777889 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44466.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44466.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGA T---AATAATAATAGTAATAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGCAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGAAATA------ATAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GAATGGAATGACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGTGCTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TCAGGGAACAGTACA------GACAGG---------GAA---CTCATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGAGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44460.1|gb|MF777883 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44460.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44460.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAGGGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGAATTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA GCAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGA T---AATAATAATAGTAATAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGGTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAGAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGCARTTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGAAATA------ATAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GAATGGAATGACACTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAGAGCTGTTTAGTAGTACT---------------------TGG------------------------ ---AATGGTACTGAAAAT-------CCAACGAACATTACAGGAAAAGAAAGT---------GAACCACCCATCATACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGARGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44468.1|gb|MF777891 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44468.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44468.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AA-TGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCTACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAGAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGA T---AATAATAATAGTAATAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGAATGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAACGCTTTAAGAGGAATAGCTATA-AAATTAAAG------GAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAGTACAACGGGGCTGTTTAATAGTACTT---------------------GG------------------------ ---AATGGTACTGAAGAG-------TCAAAGAACCGTACA------GGAGGT---------GAC---CTCATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAGTTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44475.1|gb|MF777898 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44475.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44475.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTGCCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGA T---AATAATAATAGTAATAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACCCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAACTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATGACGCTTTAAGAGGAACAGCTATG-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAACTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TTAGGGAACAGTACA------GACAGG---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44479.1|gb|MF777902 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44479.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44479.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGG A---AATAATAATAGTAGTAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACTCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGGAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAACTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAGCGCTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAACTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TTAGGGAACAGTACA------GACAGG---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44474.1|gb|MF777897 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44474.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44474.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAACA-AATGATAATGAAAATGG T---ACTAATAATAGTAATAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAGAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACCCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGACATA------GTAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATAGCGCTTTAAGAAAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---GAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGCAATACAACAAAACTGTTTGATAGTACTTGG---AATGATACTGAAAATTGG------------------------ ---AATGGTACTGAAGAG-------TTAGGGAACAGTACA------GACAGG---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACAAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44459.1|gb|MF777882 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44459.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44459.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAATAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGG T---AATAATAATAGTAGTAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACCCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGAAATA------ATAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATGACGCTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGCAATACAACAGGGCTGTTTGATAGTACC---------------------TGG------------------------ ---AATAGTACTGAAAGG-------CCAGAGAACAGTACA------GGAGGT---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44473.1|gb|MF777896 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44473.1] [isolation-source=plasma from subject F4] [collection-date=Oct-2010] [note=days-post-seroconversion:2970 viral-load:2470 CD4-count:166 CD8-count:272 gene:env] HIV-1 viroverse:44473.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAAGGGG-ATCAGGAAGAATTGGCAAAGCTTATGG------------AAATGGGGC------------ATGATGCT CCTTGGAATGTTGATGATGTGTAGT-GCTAAAGAAGACTTGTGGGTCACAGTCTATTATGGAGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGCACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGATCCCAGCCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCAGGAGGATGTAATCAGTTTATGGGATCAAAGCATGAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGGAGTGTACTGAT---------------------------------GCTAATTTGACTTTTCCAAATAACACTTC AAAC---------------------------------------------------AGGACACAATTGAATGGCCCCAAG- ---------------------GTAATAGAGAAA--------GGAGAAGTA-AAAAACTGCTCTTTCAATGTCTCCACAAT AGAAGGAAGTAAGGGGCATAAAGAATATGCA-CTCTTTTATAACCTTGATGTAGTACCAATA-AATGATAATGAAAATGG T---AATAATAATAGTAGTAGTAAGAATAAGTATATATTGATAAATTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAAAGATAAGAATTT CAATGGAACAGGACCATGCAAAAATGTCAGCACAGTACAATGTACACATGGGATCAAACCAGTAGTGTCAACCCAGCTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAATGATTAGATCT-GAAAATTTCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATAAGACTGTAGTAATTAATTGTACAAGACCCAGCAACAATACAAGGAAAGGTATACATATG------GGAC CAGGGCGAGCATTTTATGCAACAGGAGAAATA------ATAGGAGATATAAGACACGCACATTGTAACCTTAGTAAAGCA GATTGGAATGACGCTTTAAGAGAAATAGCTATA-AAATTAAGG------AAACAA---TTTGGG---AAAAATAAAACAA TAGCCTTCAACTCATCCTCA---GGAGGAGACCCAGAAACTGTAATGTACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGCAATACAACAGGGCTGTTTGATAGTACT---------------------TGG------------------------ ---AATAGTACTGAAAGG-------CCAGAGAACAGTACA------GGAGGT---------GAA---AACATCACACTCC AATGCAGAATAAGACAAATTGTAAACATGTGGCAGAGAGTAGGA-AAAGCAATATATGCCCCTCCTATCAGGGGACGAAT TTACTGTTCATCAAATATTACCGGGCTGCTACTAACAAGAGATGGTGGCTCAAACAATGACACCAATGGGACT------- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAACAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44374.1|gb|MF777905 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44374.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44374.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTA---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------GGTATCGAGCAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATATAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGCTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAAAGCA AAATGGAATAACACTTTAAAACGGATAGTTAGA-AAATTAAAA------GAACAA---GTT------GGAAATAAAAAAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGGGGGGAATTTTTC-T ATTGTGATACAACACAACTGTTTAATAGTAGTTGG---------AATGATACTGGGTCAAAT------------------ ------GACACTAAG-------------------------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44373.1|gb|MF777904 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44373.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44373.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAAGAG ACAACCACCACTCTATTTTGTGCTTCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGTATTGAAAGGAGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AAGATCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGCTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAAAGCA AAATGGAATAACACTTTAAAACGGATAGTTAGA-AAATTAAAA------GAACAA---GTT------GGAAATAAAAAAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGGGGGGAATTTTTC-T ATTGTGATACAACACAACTGTTTAATAGTAGTTGG---------AATGATACTGGGTCAAAT------------------ ------GACACTAAG-------------------------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44390.1|gb|MF777921 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44390.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44390.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAAGAG ACAACCACCACTCTATTTTGTGCTTCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGTATTGAAAGGAGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AAGATCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGCTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAAAGCA AAATGGAATAACACTTTAAAACGGATAGTTAGA-AAATTAAAA------GAACAA---GTT------GGAAATAAAAAAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGGGGGGAATTTTTC-T ATTGTGATACAACACAACTGTTTAATAGTAGTTGG---------AATGATACTGGGTCAAAT------------------ ------GACACTAAG-------------------------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44389.1|gb|MF777920 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44389.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44389.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAAGAG ACAACCACCACTCTATTTTGTGCTTCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGTATTGAAAGGAGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AAGATCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGCTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAAAGCA AAATGGAATAACACTTTAAAACGGATAGTTAGA-AAATTAAAA------GAACAA---GTT------GGAAATAAAAAAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGGGGGGAATTTTTC-T ATTGTGATACAACACAACTGTTTAATAGTAGTTGG---------AATGATACTGGGTCAAAT------------------ ------GACACTAAG-------------------------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44384.1|gb|MF777915 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44384.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44384.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------GGTATCGAGCAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGCTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAAAGCA AAATGGAATAACACTTTAAAACGGATAGTTAGA-AAATTAAAA------GAACAA---GTT------GGAAATAAAAAAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGGGGGGAATTTTTC-T ATTGTGATACAACACAACTGTTTAATAGTAGTTGG---------AATGATACTGGGTCAAAT------------------ ------GACACTAAG-------------------------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44385.1|gb|MF777916 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44385.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44385.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTTTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------GGTATCGAGCAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGCTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAAAGCA AAATGGAATAACACTTTAAAACGGATAGTTAGA-AAATTAAAA------GAACAA---GTT------GGAAATAAAAAAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGGGGGGAATTTTTC-T ATTGTGATACAACACAACTGTTTAATAGTAGTTGG---------AATGATACTGGGTCAAAT------------------ ------GACACTAAG-------------------------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44377.1|gb|MF777908 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44377.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44377.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTATTGAAAGGAGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AAGATCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGATGCAGAGAGAATATGCA-ATTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGATGGTAAGTTGTAACACCTCAGTCATT-ACACAAGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACATCACAACTGTTTAATAGTAGTTGG---------AATGATACTGGG---TAT------------------ ------AACACTCAA-------------------------GGAAATGATACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGAACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44375.1|gb|MF777906 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44375.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44375.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTATTGAAAGGAGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACACTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AAGATCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGATGCAGAGAGAATATGCA-ATTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGATGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACATCACAACTGTTTAATAGTAGTTGG---------AATGATACTGGG---TAT------------------ ------AACACTCAA-------------------------GGAAATGATACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGAACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44379.1|gb|MF777910 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44379.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44379.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTATTGAAAGGAGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AAGATCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGATGCAGAGAGAATATGCA-ATTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGATGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACATCACAACTGTTTAATAGTAGTTGG---------AATGATACTGGG---TAT------------------ ------AACACTCAA-------------------------GGAAATGATACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGAACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44387.1|gb|MF777918 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44387.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44387.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTATTGAAAGGAGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AAGATCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGATGCAGAGAGAATATGCA-ATTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGATGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACATCACAACTGTTTAATAGTAGTTGG---------AATGATACTGGG---TAT------------------ ------AACACTCAA-------------------------GGAAATGATACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGAACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44383.1|gb|MF777914 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44383.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44383.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAAGAG ACAACCACCACTCTATTTTGTGCTTCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGTATTGAAAGGAGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTACATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AAGATCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCAGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44381.1|gb|MF777912 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44381.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44381.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGT------------------------------------------------------------AGTTTCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG TGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACGCAGTCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTCACTCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACATCACAACTGTTTAATAGTAGTTGG---------AATGATACTGGG---TAT------------------ ------AACACTCAA-------------------------GGAAATGACACA------------------ATCACACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44392.1|gb|MF777923 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44392.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44392.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCTACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTY-T ACTGTAATACAACACAACTGTTTAATAGTACTTGG---------AATAATGCTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44380.1|gb|MF777911 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44380.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44380.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCAGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACATCACAACTGTTTAATAGTAGTTGG---------AATGATACTGGG---TAT------------------ ------AACACTCAA-------------------------GGAAATGACACA------------------ATCACACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGAACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44376.1|gb|MF777907 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44376.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44376.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAAACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCAGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44391.1|gb|MF777922 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44391.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44391.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCAGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAGTTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACCAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGTTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44382.1|gb|MF777913 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44382.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44382.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTCTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCAGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAACAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGAACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44386.1|gb|MF777917 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44386.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44386.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCAGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44388.1|gb|MF777919 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44388.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44388.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCAGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAGTTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCCATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44378.1|gb|MF777909 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44378.1] [isolation-source=plasma from subject F5] [collection-date=Apr-1997] [note=days-post-seroconversion:87 viral-load:39000 CD4-count:836 CD8-count:727 gene:env] HIV-1 viroverse:44378.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCAGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGTGGTAACAAGAGCAAGGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|47561.1|gb|MF777931 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47561.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47561.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CACAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGGATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTATGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47562.1|gb|MF777932 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47562.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47562.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGGATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47569.1|gb|MF777935 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47569.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47569.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGTTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGGATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47567.1|gb|MF777934 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47567.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47567.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGGATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47600.1|gb|MF777946 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47600.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47600.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGGATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45607.1|gb|MF777926 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45607.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:45607.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAATCTGTAGCAATTAATTGTACAAGACCCAACAACAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45608.1|gb|MF777927 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45608.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:45608.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45606.1|gb|MF777925 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45606.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:45606.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45605.1|gb|MF777924 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45605.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:45605.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT CAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47559.1|gb|MF777929 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47559.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47559.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTACAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATATGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47560.1|gb|MF777930 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47560.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47560.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCGA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47563.1|gb|MF777933 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47563.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47563.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47554.1|gb|MF777928 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47554.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47554.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47574.1|gb|MF777937 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47574.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47574.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47571.1|gb|MF777936 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47571.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47571.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47601.1|gb|MF777947 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47601.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47601.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47596.1|gb|MF777942 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47596.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47596.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAAAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAAGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47595.1|gb|MF777941 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47595.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47595.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47593.1|gb|MF777939 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47593.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47593.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAATT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAAA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47599.1|gb|MF777945 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47599.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47599.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47597.1|gb|MF777943 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47597.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47597.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47594.1|gb|MF777940 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47594.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47594.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47592.1|gb|MF777938 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47592.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47592.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAAGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGTTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47598.1|gb|MF777944 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47598.1] [isolation-source=plasma from subject F5] [collection-date=Oct-1997] [note=days-post-seroconversion:281 viral-load:400 CD4-count:818 CD8-count:562 gene:env] HIV-1 viroverse:47598.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAGATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAATCCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43344.1|gb|MF777970 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43344.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43344.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATATACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGGGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43331.1|gb|MF777957 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43331.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43331.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGTACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CGGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTACTTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAACATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43340.1|gb|MF777966 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43340.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43340.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATATCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTAATTGC-AGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAGACCACC------- --------------------------TTCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43323.1|gb|MF777949 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43323.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43323.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGGCCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAGAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCTAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACGCCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43328.1|gb|MF777954 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43328.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43328.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCGCTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATATTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACGGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43333.1|gb|MF777959 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43333.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43333.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTRAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAGCACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43327.1|gb|MF777953 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43327.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43327.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCARCATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAGCACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43338.1|gb|MF777964 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43338.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43338.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTCCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAA-CCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACGCCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAGCACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GGAAAAAGA >gnl|viroverse|43329.1|gb|MF777955 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43329.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43329.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACGCCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43330.1|gb|MF777956 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43330.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43330.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTACTTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43341.1|gb|MF777967 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43341.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43341.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGG------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTACTTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43336.1|gb|MF777962 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43336.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43336.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTACTTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43334.1|gb|MF777960 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43334.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43334.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTYAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43325.1|gb|MF777951 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43325.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43325.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GCAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAGTGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43342.1|gb|MF777968 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43342.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43342.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACC---ATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43343.1|gb|MF777969 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43343.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43343.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAGACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCGAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43332.1|gb|MF777958 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43332.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43332.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGRTGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATCCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GAC------------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43322.1|gb|MF777948 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43322.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43322.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43339.1|gb|MF777965 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43339.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43339.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTARAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43337.1|gb|MF777963 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43337.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43337.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGGAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43324.1|gb|MF777950 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43324.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43324.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43326.1|gb|MF777952 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43326.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43326.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAGCACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACGCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTG-----------TTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTACGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCGTGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43335.1|gb|MF777961 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43335.1] [isolation-source=plasma from subject F5] [collection-date=Nov-1998] [note=days-post-seroconversion:681 viral-load:53000 CD4-count:920 CD8-count:797 gene:env] HIV-1 viroverse:43335.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCAGGAAGAATTGTCAGCGCTTGTGG------------AGATGGGGC------------ATGATGTT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAGCACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAACGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42597.1|gb|MF777972 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42597.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42597.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---CC TGGCAATAAGGACAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------GAGAATAAAACAA TAATCTTTACTCRACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42612.1|gb|MF777987 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42612.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42612.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------GTGATGCT CCTTGGGATGTTAACGATCTGTAGT-GCTGCAGACAATTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACGCATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAG-------- -GGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAT---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACAGTTTTACTTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGGT---GACCCGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42614.1|gb|MF777989 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42614.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42614.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------GTGATGCT CCTTGGGATGTTAACGATCTGTAGT-GCCGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAGTAAGAATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCGA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42608.1|gb|MF777983 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42608.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42608.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAGTAAGGATAATATTAGC---TATAGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAGCACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGTTGCTATTAACAAGAGATGGTAGTGGT---GACACGACCAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42601.1|gb|MF777976 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42601.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42601.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAGTGATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAGCACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACGGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAGTGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42606.1|gb|MF777981 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42606.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42606.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAACTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGC---------AATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAGTGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42607.1|gb|MF777982 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42607.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42607.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGGTGCT CCTTGGGATGGTAATGATCTGTAGT-GCCGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAC------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGC---------AATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42611.1|gb|MF777986 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42611.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42611.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CATTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGAAT---AA TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACGACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCTCATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42616.1|gb|MF777991 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42616.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42616.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACG------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGAGGTAATAAAAATA-GAGGATGAGGAT---AC TGGC---------AATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGT---------AACACGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42596.1|gb|MF777971 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42596.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42596.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGC---------AATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAAATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAGTGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAATCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42603.1|gb|MF777978 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42603.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42603.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATAATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAACTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAG---AC TGGCAATAAGAGTAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42615.1|gb|MF777990 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42615.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42615.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCCGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCGATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42617.1|gb|MF777992 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42617.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42617.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TAGCAGTAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGGCCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42598.1|gb|MF777973 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42598.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42598.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TAGCAGTAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42609.1|gb|MF777984 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42609.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42609.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACGCATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAG-------- -GGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42613.1|gb|MF777988 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42613.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42613.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGATCATCC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42599.1|gb|MF777974 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42599.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42599.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGATCATCC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42600.1|gb|MF777975 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42600.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42600.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGATCATCC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42900.1|gb|MF777993 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42900.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42900.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAG--GATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGATCATCC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42605.1|gb|MF777980 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42605.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42605.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCGATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42604.1|gb|MF777979 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42604.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42604.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGC---------AATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42610.1|gb|MF777985 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42610.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42610.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGC---------AATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42602.1|gb|MF777977 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42602.1] [isolation-source=plasma from subject F5] [collection-date=May-1999] [note=days-post-seroconversion:862 viral-load:12000 CD4-count:646 CD8-count:646 gene:env] HIV-1 viroverse:42602.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGAT---------AC TGGCAATAAGGATAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAAATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAGCACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GCAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAATATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42355.1|gb|MF777998 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42355.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42355.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAGTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAGAGAATATGCA-ATTTTTGATAAACTTGATGTCATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAGTCATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------GTCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTCACAAGAGATGGTGGT------GACATGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42358.1|gb|MF778001 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42358.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42358.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCTGCAGACAATTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------AAGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGYTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTTACAAGAGATGGTAGTGGT---GACACGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42865.1|gb|MF778004 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42865.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42865.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCTGCAGACAATTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAATATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGATGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATACT------------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACGCGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42353.1|gb|MF777996 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42353.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42353.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCTGCAGACAATTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGATGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATACT------------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTTACAAGAGATGGTAGTGGT---GACACGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42953.1|gb|MF778013 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42953.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42953.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAGATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGATGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATACT------------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42883.1|gb|MF778011 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42883.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42883.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAGTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTTACAAGAGATGGTAGTGGT---GACATGAACCAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42882.1|gb|MF778010 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42882.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42882.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACAATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGACAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTA-TGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTTACAAGAGATGGTAGTGGT---GACATGAACCAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42884.1|gb|MF778012 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42884.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42884.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CATTGGGATGTTAATGATCTGTAGT-GCTGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAGAGAATATGCA-ATTTTTGATAAACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATC-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAAGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAAATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTTACAAGAGATGGTAGTGGT---AACATGAACAAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42356.1|gb|MF777999 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42356.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42356.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCCACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAGAGAATATGCA-ATTTTTGATAAACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACTATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---TACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42357.1|gb|MF778000 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42357.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42357.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGTACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCCGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCCATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAGAGAATATGCA-ATTTTTGATAAACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTACTATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATC-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTTACAAGAGATGGTAGTGGT---GACACGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCGAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42354.1|gb|MF777997 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42354.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42354.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCCGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTTGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAGAGAATATGCA-ATTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAGTACTATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGCAGTT TAATGGAACAGGATCATGTATCAATATCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAGAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAAACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACGAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42864.1|gb|MF778003 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42864.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42864.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCCGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGATGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATACT------------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATC-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACAATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAACA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGATGCACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACAAG---ACC------- --------------------------TCCATGAGTGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42352.1|gb|MF777995 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42352.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42352.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCCGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATATT---------AGCTATAGGTTGATAAATTGCAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACAAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42863.1|gb|MF778002 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42863.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42863.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCGCAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGGGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AATAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAAAAAT TAGGTGTGTATCAAATATTACAGGGTTGATATTAACAAGAGATGGTGGTGGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42875.1|gb|MF778007 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42875.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42875.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATACCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGGATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGGGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42876.1|gb|MF778008 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42876.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42876.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATACCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATACAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42866.1|gb|MF778005 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42866.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42866.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATACCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42874.1|gb|MF778006 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42874.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42874.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42881.1|gb|MF778009 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42881.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42881.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|42351.1|gb|MF777994 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42351.1] [isolation-source=plasma from subject F5] [collection-date=Jul-2000] [note=days-post-seroconversion:1284 viral-load:1600000 CD4-count:658 CD8-count:527 gene:env] HIV-1 viroverse:42351.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATAAAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAAT------------------------------GCCACTAATATCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAGAGA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCGGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|43375.1|gb|MF778025 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43375.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43375.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAGTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGRAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAACTTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT------AACATGAACAAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43376.1|gb|MF778026 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43376.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43376.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAC------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATCTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAATATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCTGTGAGGGGAGGGGACCCAGAACTTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT------GACACGAACAGG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43081.1|gb|MF778020 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43081.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43081.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAC------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATCTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GAAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT------GACACGAACAGG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43377.1|gb|MF778027 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43377.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43377.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAC------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATCTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTATAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAGCACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT------GACACGAACAGG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43378.1|gb|MF778028 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43378.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43378.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAACTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACAATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATACT------------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACGTTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACAGCTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAT---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43075.1|gb|MF778017 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43075.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43075.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACAATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-TTTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGATGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACAAT---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43043.1|gb|MF778014 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43043.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43043.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGGTAATGATCTGTAGT-GCCGCAGACCAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAGTGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAGAGAATATGCA-ATTTTTGATAAACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAGTACTATT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAGACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAGAAGTATACGTATA------GGAC CAGGCAGAACATTTTATGTAACAGGAGAC------------------ATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGGGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT------------AAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43084.1|gb|MF778021 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43084.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43084.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGACATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATATCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGATGAT---AC TGGCAATAAGGAT---------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATC-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAARTGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAAACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAGTTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAAT------T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43654.1|gb|MF778035 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43654.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43654.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CATTGGGATGTTAATGATCTGTAGT-GCTGAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTCAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTATGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTCCT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTRTACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43382.1|gb|MF778032 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43382.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43382.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CATTGGGATGTTAATGATCTGTAGT-GCTGAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTATGTGTT ACTTTGAATTGCACTGAT------------------TTGGGGAATACCACTGCTACT---AAT------------ACCAC TAAT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACTAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43371.1|gb|MF778022 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43371.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43371.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGATAATGATCTGTAGT-GCTGCAGACAATTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAGAACGTTTTATGCAACAGGAAACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43078.1|gb|MF778019 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43078.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43078.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATACCAATGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ATGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43380.1|gb|MF778030 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43380.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43380.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTGTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATACCAATGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAGTTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACGAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43384.1|gb|MF778034 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43384.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43384.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGARGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTGTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGCGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATACCAATGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGCTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACAGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACGAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43372.1|gb|MF778023 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43372.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43372.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTGTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATGCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAAACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACGAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43656.1|gb|MF778036 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43656.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43656.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTGTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATGCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAAACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGW-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACGAG---ACC------- --------------------------TCCATGAATGAAACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43381.1|gb|MF778031 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43381.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43381.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAC------------------TTG---AATAACACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAAACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATAAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43048.1|gb|MF778016 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43048.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43048.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATACCAATGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAATACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAAACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGCTGTACATCAAATATTACGGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43374.1|gb|MF778024 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43374.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43374.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAAT-GCTGCAGACAATTTGTGGGTCACAGTTTATTACGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTTGGGAATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAGAGAATATGCA-ATTTTTGATAAACTTGATATAATAAAAATA-GAAGATGAGGATAATAC TGGCAACAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAGACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAGAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43047.1|gb|MF778015 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43047.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43047.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGGATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAGTGATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAGTTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACGAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGGGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43379.1|gb|MF778029 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43379.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43379.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGGATACCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATAAGAGTGATATT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTCGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACGTTTTATGCAACAGGAGACATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCCATCAGAGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACGAG---ACC------- --------------------------TCCGTGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43076.1|gb|MF778018 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43076.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43076.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAA------------------------------TGCCACTAATATCATTAGTGGTATCAAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG CATAAGAGATAAGGTGAAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACTATGTACCAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GATACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|43383.1|gb|MF778033 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43383.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2001] [note=days-post-seroconversion:1542 viral-load:64000 CD4-count:501 CD8-count:744 gene:env] HIV-1 viroverse:43383.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTGCAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAA------------------------------TGTCACTAATACCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAA AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GATACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45494.1|gb|MF778037 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45494.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45494.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTGAAGACAACTTGTGGGTCACAGTGTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAACATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAATTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGCATTGCACTGAT------------------TTG---AATATCACTGCT-------------------------- -AGT---------------------------------------------AGTAATGGGGTA------------------- ---------------------AAGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-ATTTTTGATAAACTTGATGTAATAAAAATA-CAGGATGAGGAT---AC TGGCAATGAGAGTACTATT---------AGATATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAGACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAGAAGTATACGCATA------GGAC CAGGCAGACCATTTTATGTAACAGGA------------------GACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAATACCTTAAGACATATAGTTACA-AAATTAGGA------GAGCAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACGCTTTTAATTGT-GGGGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGATACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAACGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---------ACGAACCAA---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCGCCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45496.1|gb|MF778039 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45496.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45496.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAAGGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTGTAGACAATTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---------GAT---ACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATGGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATACT------------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGGATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATATTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTCAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGACAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGG-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATGTCACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---AACATGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCRGAGA-GAAAAAAGA >gnl|viroverse|45498.1|gb|MF778041 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45498.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45498.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAARATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTGAGGGATACCACTGCTACT---AGT------------ACCAC TAGT---------------------------------------------AGGAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAGGAAATG-ACCAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------ACCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAGGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAACCATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45500.1|gb|MF778043 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45500.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45500.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTGCAGACAATTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAACAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGAACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AGTGCTACTGGGTCAAAC------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45501.1|gb|MF778044 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45501.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45501.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATAACAATGCTACT---AAT------------ACCCC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGAAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------ACCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------GACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAACGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCTCCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45502.1|gb|MF778045 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45502.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45502.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGGAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGG---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45503.1|gb|MF778046 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45503.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45503.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTGCAGACAATTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAACATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATATCACTGCT-------------------------- -AGT---------------------------------------------AGTAATGGGGTA------------------- ---------------------AAGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATATCACCACAAA CATAAGAGATAAAGTGCGGAAAGAATATGCA-ATTTTTGATAGACTTGATGTAATAAAAATA-CAGGATGAGGAT---AC TGGCAATAAGAGTGATACT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCTGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAGACTGTAGAAATTAATTGTACCAGACCCAACAACAACACAAGAAGAAGTATACGCATA------GGAC CAGGCAGACCATTTTATGTAACAGGA------------------GACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGAGTCAAAT------------------ ------AACACTCAA-------------------------GGAAACGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTAGTGGT---GACACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45505.1|gb|MF778048 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45505.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45505.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---------AAT---ACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGGCA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------ACCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAAGA------GAACAC---TTT------AAGGATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45507.1|gb|MF778050 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45507.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45507.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTGAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAACATATGATACAGAGGTACATAATGYTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAATATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------ACCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAAACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAAGTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGACAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45510.1|gb|MF778053 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45510.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45510.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAA TAGT---------------------------------------------AGTAATAGGAAA------------------- ---------------------ACGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAATAC TGGCAATAAGAGTAATAAT---------ACCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAAACAATGCTAAAACCATAATAGT ACAACTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGATACTGGGTCAAAT------------------ ------AACACCCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTACTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45513.1|gb|MF778054 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45513.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45513.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------GTGATGCT CCTTGGGATGTTGATGATCTGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACACAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---------GAT---ACT---AAT------------ACTAC TAGT---------------------------------------------AGTAATGGGACA------------------- ---------------------ATGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATGTCACCACAAA CATAAGAGATAAAGTGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATGTAATAAAAATA-GAGGATGAGGAT---AC TGGCAATACT------------------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGGATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGAAAAAGTATACATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAATAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45497.1|gb|MF778040 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45497.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45497.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAAGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCCACT---AAT------------ATTAC TCAT------------------------------------------------------------GGTTTCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAGAGCATGGTATGCAACAGGAAAAATA------ATAGGAAAAATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGGGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GATACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCCAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45509.1|gb|MF778052 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45509.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45509.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis -AGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCAGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATACCACT---AAT------------ATCAC TCAT------------------------------------------------------------GGTTTCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAAAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGTCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAGAGCGATGTATGCAACAGGAAAAATA------ATAGGAAAAATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGGGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTCTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGGTGG---------AATAGTAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGGAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45506.1|gb|MF778049 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45506.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45506.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATACTGCACTGAT------------------GTG---------AATACCACT---AAT------------ATCAC TCAT------------------------------------------------------------GGTTTCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGTCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAGAGCGATGTATGCAACAGGAAAAATA------ATAGGAAAAATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGGTGG---------AATAGTAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGGAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45549.1|gb|MF778055 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45549.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45549.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGAGGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATACAGAAGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATACCACT---AAT------------ATCAC TCAT------------------------------------------------------------GGTTTCGAGAAA---- ---------------------CCGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTGGTAAGTTGTAACACCTCAGTCATT-ACACAGTCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCGATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAGAGCGATGTATGCAACAGGAAAAATA------ATAGGAAAAATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGGTGG---------AATAGTAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGGAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGRGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45499.1|gb|MF778042 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45499.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45499.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGAGGTGAA------------------------------TGCCACTAATACTATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGAGAATATGCA-CTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAGTGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAGAGTATACCTATG------GGAC CAGGCAAAGCATGGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGGTGG---------AATAGTAATGGGTTAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCCAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45504.1|gb|MF778047 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45504.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45504.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATATGAA------------------------------TGCCACTAATACCATTAGTAGTATCGAGGAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGTGAATATGCA-TTTTTCTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAATATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCATGGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GATACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45508.1|gb|MF778051 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45508.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45508.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCAGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAAT-GTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACCGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGATGTGAA------------------------------TACCACTAATACTATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGTGAATATGCA-TTTTTTTATAACCTTGATGTAATCAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACCAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAGAGCAATGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GATACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGGAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45495.1|gb|MF778038 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45495.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45495.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTATGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTGAAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTACTGAGGTGAA------------------------------TGCCACTAATACCATTAGTGGTATCGAGAAA---- ---------------------ACGATAGAGAAA--------GGAGAAATA-AAAAACTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGTGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAGTATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCACAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAGAGCARTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGGATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAACCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GACACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGGAGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45550.1|gb|MF778056 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45550.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2002] [note=days-post-seroconversion:1922 viral-load:250000 CD4-count: CD8-count: gene:env] HIV-1 viroverse:45550.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATAATGCT CCTTGGGATGTTAATGATATGTAGT-GCTACAGACAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTATATTGCACTGAT------------------GTG---------AATGCAACT---AAT------------ATCAC TAGTATTGATGTGAA------------------------------TGCCACTAATACCATTAGTGGTATCGAGGAA---- ---------------------ACGATAGAAAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTTACCACAAG AGTAAGAGATAAGGTGCAGAGTGAATATGCA-TTTTTTTATAACCTTGATGTAATAAGAATA-CAGGATAATGAT---AC T---------------------------AGATATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAAATATCCTTTGAGCCAATTCCCATACATTATTGTACCCCGGCTGGTTTTGCAATTATAAAGTGTAATGATAAGAAGTT TAATGGAACAGGACCATGTACCAATGTCAGCATAGTACAATGCACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATTAGATCC-GCCAATTTCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACCCAACAATAATACAATAAAAAGTATACCTATG------GGAC CAGGCAAAGCAGTGTATGCAACAGGAAAAATA------ATAGGAAATATAAGACAAGCATATTGTACCCTTAATAGAACA AAATGGAATAACACTTTAGAACGGATAGTTAAA-AAATTAAGA------GAACAA---GTT------GGGAATAAAACAA TAGTCTTTAAGCAATCTGCA---GGAGGGGACCTAGAAATTACAATGCACAGTTTTAATTGT-AGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGTAGTTGG---------AATAATAATGGGTCAAAT------------------ ------GATACTAAAGGA-------AACAAA---------GGAAATGACACA------------------ATCATACTCC CATGCAAAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAARGGAGAAAT TAGGTGTGTATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAGTGATGACAGGAGCAACGACACT------- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|44338.1|gb|MF778064 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44338.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44338.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGATGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCCACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------AAGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTGATACT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCTGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTTTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACGACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATAAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44350.1|gb|MF778076 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44350.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44350.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGACGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTAAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCTTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TAGCAATAAGAGTGATACT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTTATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------GATGCTACTAGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACGAAT TAGTTGTACATCAAATATTACAGGGCTACTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44344.1|gb|MF778070 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44344.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44344.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGGAGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACTAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGAAATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAACACAACAAAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGAAGAAACA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44343.1|gb|MF778069 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44343.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44343.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGATGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATGAGAGTACTATT---------AGATATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TATTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAAGTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGATCCAGAAATTGTTATGCACACTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAACACAACAAAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAAACGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44348.1|gb|MF778074 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44348.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44348.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGGCAGCACTTGAGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAAAATTGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCAGGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGCATTGCACTGAT------------------TTG---AATATCACTGCT-------------------------- -AGT---------------------------------------------AGTAATGGGGTA------------------- ---------------------AAGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCAATATCACCACAAA CATAAGAGATAAAAGGAGGAGAGAATATGCA-ATTTTTGATAAACTTGATGTAATAAAAATA-CAGGATGAGGAT---AC TGGCAATGAGAGTACTATT---------AGATATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAATATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAGACTGTAGAAATTAATTGTACAAGACCCAACAACAACACAAGAAGAAGTATACGCATA------GGAC CAGGCAGACCATTTTATGTAACAGGA------------------GACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGAA------GAACAC---TTT------AAGGATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAACGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTAGTGGT---GACACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44342.1|gb|MF778068 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44342.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44342.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGATGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCCACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------AAGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATGAGAGTACTATT---------AGATATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAAGTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGGTAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAACA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAAAGAGATCTTCAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44345.1|gb|MF778071 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44345.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44345.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTAAT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATGAGAGTACTATT---------AGATATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTTATTGTACAAGACACAACAACAACACAAGAAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACAATCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGTGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44335.1|gb|MF778061 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44335.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44335.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGACGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTAAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCGCCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCTTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCTTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTTATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGCAGAGCA AAATGGAATAACACCTTAAGACATATAGCTACA-AAATTAGGA------GAACAT---TTT------AAGGATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------GAGGCTACTAGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTCATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44341.1|gb|MF778067 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44341.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44341.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGGAGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTAAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAAATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCTTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCTGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTTAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------GATGCTACTAGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44337.1|gb|MF778063 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44337.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44337.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGGAGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTGATACT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCTGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAAGTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGGTAAAACAA TAATCTTTACTCAACCAGTAAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------GATGCTACTAGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44347.1|gb|MF778073 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44347.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44347.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGACGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTTTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTGATACT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCTGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTACTTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGGTAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGCAGTTGG---------GATGCTACTAGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44336.1|gb|MF778062 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44336.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44336.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGATGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTGATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATGAGAGTACTATT---------AGATATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGAAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATTTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACACAACACGACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGAAGAAACA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44331.1|gb|MF778057 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44331.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44331.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGATGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGTGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATGAGAGTACTATT---------AGATATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTACTTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGGTAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACGACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGAAGAAACA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44334.1|gb|MF778060 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44334.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44334.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTGATACT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCTGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGGTAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------ATCACTCAA-------------------------GGACAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAATCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44332.1|gb|MF778058 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44332.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44332.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CAGTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTATAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTA---AATCCCACTGCCACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------AAGTTAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGAAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGCTACA-AAATTAGGA------GAACAT---TTT------AAGGATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACCCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGCAT TAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGGATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44333.1|gb|MF778059 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44333.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44333.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGATGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCCACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ---------------------AAGTTAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAGCAAAACAA TAATCTTTACTCAACCAGTAAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACAAAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGCAT TAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44340.1|gb|MF778066 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44340.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44340.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGGCAGCACTTGTGG------------AGATGGGGC------------CTGATGAT CATTGGGATGTTGATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGAAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTAAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAATACAACACAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACCCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCAGGGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44349.1|gb|MF778075 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44349.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44349.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGGAGAATTGGCAGCACTTGTGG------------AAATGGGGC------------CTGATGAT CATTGGGATGTTAATGATCTGTAGT-GCTGAAAACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCTACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAGGACA------------------- ------------------------ATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATACATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTATTTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGATAAAACAA TAATCTTTACTCAACCAGTAAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACCCAA-------------------------GGAGGAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44339.1|gb|MF778065 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44339.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44339.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAAT-GCTGAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGAAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCCACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAAGACA------------------- ---------------------AAGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAT---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGAACT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAAGTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGTAATGTGAGTAGAGCA AAATGGAATAACACCTTAAGACATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGAATAAAACAA TAATCTTTACTCAACCAGTGAGGGGAGGGGACCCAGAAATTGTAATGCACACTTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACACAACTGTTTAATAGCAGTTGG---------AATGCTACTGGGTCAAAT------------------ ------AACACTCAA-------------------------GGACAAGAAATA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT TAGCTGTACATCAAATATTACAGGGCTGCTATTAATAAGAGATGGTAGTGGT---AACATGAAC------ACC------- --------------------------TCCATGGATGAGACCTTCAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44346.1|gb|MF778072 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44346.1] [isolation-source=plasma from subject F5] [collection-date=Apr-2003] [note=days-post-seroconversion:2276 viral-load:360000 CD4-count:3 CD8-count:154 gene:env] HIV-1 viroverse:44346.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGATGTTGATGATCTGTAAT-GCTGAAGACAACTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA ACAACTACCACTCTATTTTGTGCATCAGATGCTAAGGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAGTAGTAATGGAAAATGTGACAGAAACTTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTACAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACTTTGAATTGCACTGAT------------------TTG---AATCCCACTGCCACT---AAT------------ACCAC TAGT---------------------------------------------AGTAATAAGACA------------------- ---------------------AAGATAGAAGGA--------AAAGAAATG-ACTAATTGCTCTTTCTATGTCACCACAAA CATAAGAGATAAAAGGCGGAAAGAAAATGCA-ATTTTTGATAGACTTGATATAATAAAAATA-GAGGATGAGGATAGTAC TGGCAATAAGAGTAATAAC---------AGCTATAGGTTGATAAATTGTAACACCACAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTATCAAGTGTAATGATAAGAAGTT TAATGGAACAGGATCATGTACCAATGTCAGCTCAGTACAATGCACACATGGAATTAGGCCAGTAGTATCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTGATTAGATCT-GCCAACATCTCAGACAATGCTAAAACCATAATAGT ACAGCTGAATGAAACTGTAGAAATTAATTGTACAAGACACAACAACAACACAAGGAAAAGTATCCATATA------GGAC CAGGCAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACATTGCAATGTTAGTAGAGCA AAATGGAATAACACCTTAAGAAATATAGTTACA-AAATTAGGA------GAACAC---TTT------AAGGATAAAATAA TAATCTTTACTCAACCAGTGAGGGGAGGAGACCCAGAAATTGTAATGCACACCTTTAATTGT-GGAGGGGAATTTTTC-T ATTGTAACACAACAAAACTGTTTAATAGCAGTTGG---------AATGCTAATGGGTCAAAT------------------ ------AACACTCAA-------------------------GGAGAAGAAACA------------------ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACGAAT CAGCTGTACATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGT---------ACGAACCAG---ACC------- --------------------------TCCATGAATGAGACCTTTAGACCTGGGGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47494.1|gb|MF778080 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47494.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47494.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ GGTAATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47496.1|gb|MF778082 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47496.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47496.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT--CACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAAAGAACCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG--------------------------------------------- ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------GATAACATAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAGTATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47499.1|gb|MF778085 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47499.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47499.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGTATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGTTAAC-AAATTAAGA------AAACAA---TTT------GGGAAGGAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGAA------GAG-TCAACGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------GATAACATAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47491.1|gb|MF778077 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47491.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47491.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCAACAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACGGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AGTACTAC TGGTTCGAATAAG---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAAAGAACCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAGAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGYAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAAT------AATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAGTATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47502.1|gb|MF778088 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47502.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47502.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATAAAAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG--------------------------------------------- ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------GATAACATAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAGTATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47506.1|gb|MF778092 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47506.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47506.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAACTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAAAGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG--------------------------------------------- ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------GATAACATAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAGTATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47504.1|gb|MF778090 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47504.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47504.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GCTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGTCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAGCCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG--------------------------------------------- ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------AATAGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47495.1|gb|MF778081 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47495.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47495.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTGCTAACTTGAAT---------GTTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTAAC-AAATTAAGA------AAACAA---TTT------GGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTAATTGG---------------------ACTGGT------------------ ---------ACTGAA------GAG-TCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTACCAAAGGACAAAT TAGCTGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------AATAGCACAAGC---A GC---------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47501.1|gb|MF778087 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47501.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47501.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGGAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAAAGAACCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGGT------------------ ---AATAGTACTAAAGAGCAAGAG-TCAGAGGGCGAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------AATAACACAAAC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47509.1|gb|MF778095 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47509.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47509.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGT-GCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGGT------------------ ---AATAGTACTAAAGAGCAAGAG-TCAGAGGGCGAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------AATAACACAAAC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47498.1|gb|MF778084 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47498.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47498.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACGGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AGTACTAC TGGTTCGAATAAG---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTAGT------------------ ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---ATTAGT------AATAGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47508.1|gb|MF778094 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47508.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47508.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACGGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AGTACTAC TGGTTCGAATAAG---------------------------------GCGACTAATACCATA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTAGT------------------ ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGT---AGTAGT------AATAGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47497.1|gb|MF778083 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47497.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47497.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ACGACTAATACCATA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGG------------------------ ---CCTAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAGTAGT------AATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47492.1|gb|MF778078 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47492.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47492.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTAAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ACGACTAATACCATA------------------- ---------------------ATTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAGTAGT------AATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47505.1|gb|MF778091 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47505.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47505.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCG------------------------------------------------------------------------- ------------------------------ACA--------GGAGAAATG-AAAARCTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAGTAGT------AATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47500.1|gb|MF778086 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47500.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47500.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ACGACTAATACCATA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACCCAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACCCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAGTAGT------AATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47507.1|gb|MF778093 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47507.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47507.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAAT-GAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTGCTTGGACTGGTAATAGTACTGAAGAGTCACAGGGCAATACAACAAGCACT GGTAATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAGTAAT---------AGCACAAACGAGA AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47503.1|gb|MF778089 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47503.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47503.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCATTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGGTCT-GCCAATCTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAAACTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGACTCAACAAACCTGTTTAACAGTGCTTGGACTGGTAATAGTACTGAAGAGTCACAGGGCAATACAACAAGCACT GGTAATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAGTAAT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|47493.1|gb|MF778079 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47493.1] [isolation-source=plasma from subject F6] [collection-date=Sep-2001] [note=days-post-seroconversion:739 viral-load:1100 CD4-count:1103 CD8-count:572 gene:env] HIV-1 viroverse:47493.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAC---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAGTTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTGCTTGGACTGGTAATAGTACTGAAGAGTCACAGGGCAATACAACAAGCACT GGTAATAGTACTGAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAGTAAT---------AGCACAAACGAGA AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42559.1|gb|MF778106 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42559.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42559.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAGGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTATAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ ---AATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42552.1|gb|MF778099 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42552.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42552.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATC-TTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAACTTCTCAAACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------CCTGGT------------------ ---AATAGTACTAAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAATAAT---------AACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42571.1|gb|MF778117 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42571.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42571.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAACTTCTCAAACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------CCTGGT------------------ ---AATAGTACTAAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATSCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAATAAT---------AACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42569.1|gb|MF778115 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42569.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42569.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTAAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAGGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTATAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ ---AATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42549.1|gb|MF778096 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42549.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42549.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAGGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTATAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ ---AATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42557.1|gb|MF778104 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42557.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42557.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAAGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTACTTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGGAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------CCTGGT------------------ ---AATAGTACTGAA------AAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42572.1|gb|MF778118 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42572.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42572.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTACTTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGGAGCA AAATGGAATAACGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------CCTGGT------------------ ---AATAGTACTAAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42556.1|gb|MF778103 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42556.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42556.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACGCCACTCTGTATT ACTTTAAGTTGCACTAAC---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGCA------GAA-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42554.1|gb|MF778101 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42554.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42554.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGCA------GAA-CCACAGGGC---------------------------------------ACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42550.1|gb|MF778097 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42550.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42550.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAAGAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTGATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGCA------GAA-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42565.1|gb|MF778111 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42565.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42565.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTAAAGT-GCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACCCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTACTTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGCA------GAA-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACRATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42570.1|gb|MF778116 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42570.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42570.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACCCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATG-- -----------AATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGCA------GAA-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42553.1|gb|MF778100 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42553.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42553.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACCCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGAT--AAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGCA------GAA-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42564.1|gb|MF778110 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42564.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42564.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACCCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGCA------GAA-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42563.1|gb|MF778109 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42563.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42563.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAGTTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAACAGAACCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ ---AATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGGAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42568.1|gb|MF778114 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42568.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42568.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAAACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACT--------------------------------AC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GTCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ GGTAATAGTACTGGA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42558.1|gb|MF778105 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42558.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42558.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAARATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GTCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ GGTAATAGTACTGGA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42562.1|gb|MF778108 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42562.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42562.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GTCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ GGTAATAGTACTGGA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42555.1|gb|MF778102 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42555.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42555.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGRGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGGT------------------ ---AATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGGGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42560.1|gb|MF778107 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42560.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42560.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAAGAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAAAGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------ACTGAT------------------ GGTAATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42551.1|gb|MF778098 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42551.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42551.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAAGAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAATTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCRATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAAAGAACCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTAAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTATTAATAATAGCGCA---GACGAGAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42567.1|gb|MF778113 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42567.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42567.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAAAGAACCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTAAA------GAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTATTAATAATAGCGCA---GACGAGAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42566.1|gb|MF778112 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42566.1] [isolation-source=plasma from subject F6] [collection-date=Jan-2002] [note=days-post-seroconversion:853 viral-load:1200 CD4-count:1197 CD8-count:632 gene:env] HIV-1 viroverse:42566.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACTACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACGCCACTCTGTATT ACTTTAAGTTGCACTAAC---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAGATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCG-ACCAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------GAGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA------AAG-CCACAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAGTGAT---------AACACAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAACTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43907.1|gb|MF778128 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43907.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43907.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAAAAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTRATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------CCTGGT------------------ ---AATAGAACTGAA------GCG-CCAGAGAGCAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT ACAGAGA-GAAAAAAGA >gnl|viroverse|43895.1|gb|MF778120 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43895.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43895.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTRAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAAAAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAATCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------CCTGGT------------------ ---AATAGAACTGAA------GCG-CCAGAGAGCAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43901.1|gb|MF778122 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43901.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43901.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAAAAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAATCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------CCTGGT------------------ ---AATAGAACTGAA------GCG-CCAGAGAGCAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACATGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43906.1|gb|MF778127 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43906.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43906.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAAAAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG---------------------CCTGGT------------------ ---AATAGAACTGAA------GCG-CCAGAGAGCAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43902.1|gb|MF778123 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43902.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43902.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAATAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TAGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACGGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTGAC-AAATTAGGA------GAACAA---TTT------AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAG-TCAGAGGGCAAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43905.1|gb|MF778126 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43905.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43905.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TAGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACGGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTGCTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAG-TCAGAGGGCAAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43903.1|gb|MF778124 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43903.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43903.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TAGTTCGAATAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACGGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGGATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATATCGCTTTAAAACAGATAGCTGAC-AAATTAGGA------GAACAA---TTT------AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTGCTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAG-TCAGAGGGCAAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45671.1|gb|MF778129 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45671.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:45671.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTAYATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTGAC-AAATTAGGA------GAACAA---TTT------AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAG-CCACAGGGCAAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45672.1|gb|MF778130 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45672.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:45672.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATGGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTATAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGAA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAGTAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTGCTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAG-TCAGAGGGCAAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45673.1|gb|MF778131 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45673.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:45673.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTATCAC TGGTTCGAATAAT---------------------------------ACGACTAAT------------------------- ------------------------------ACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGAATATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGGATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAAAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGTA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTGCTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAG-TCAGAGGGCAAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGCGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45674.1|gb|MF778132 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45674.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:45674.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAAAAAT---------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTG--------------------------------------------- ------------------------------TACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGT--------------------------------------- ---AATAGAACTGAA------GCG-CCAGAGAGCAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATRGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43899.1|gb|MF778121 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43899.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43899.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGRCA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTATAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAATACTGAA------GAG-TCACAGGGCAAG------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTAATAATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43904.1|gb|MF778125 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43904.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43904.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGGTTCG------------------------------------------------------------------------- ------------------------------ACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCTAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCATATTGTAATGTTAGTGAAGCA AAATGGAATAACGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTT------AGGAATAAAACAA TAATCTTTAACCAATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTATTAATAATAGCACA---AACGAGACC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45676.1|gb|MF778134 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45676.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:45676.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAGTTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATACCACA------------------- ---------------------GTCAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGCCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGG------------------------ ---AATGGTACTGAA------AAG-TCAGAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------AATAACGAAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43894.1|gb|MF778119 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43894.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:43894.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT------------------------------------------------------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAGTGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAAC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTATAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGACTGAT------------------ GGGAATGGTACTGAA------GAG-TCACAGGGCAGT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45675.1|gb|MF778133 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45675.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2002] [note=days-post-seroconversion:1160 viral-load:9400 CD4-count:630 CD8-count:389 gene:env] HIV-1 viroverse:45675.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACARGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ATTACTAC TGATTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGACAATACTAAGACCATAATAGT ACAGCTAAACGAATCTGTGGAAATTAATTGTATAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGACTGAT------------------ GGGAATGGTACTGAA------GAG-TCACAGGGCAAG------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43910.1|gb|MF778153 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43910.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43910.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTGTTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGCAATTACTTGTATAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGACTGAT------------------ GGGAATGGTACTAAC------GAG-TCACAGGAC---------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATACT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43908.1|gb|MF778151 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43908.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43908.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTACTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGAGGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGC---------------------------------------------ACTAAT---------ATTACTAC TGGTTCGAATAAY---------------------------------GCGACTAATACCACA------------------- ---------------------GGTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAAGAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGGAACA AAATGGAATAACACTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTT-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAATACTGAA-------------------AAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGCTGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43521.1|gb|MF778138 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43521.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43521.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAACCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAATACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAACGCTTTAAAACAGATAGCTGAC-AAATTAGAA------GAACAA---TTT------AAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGGCCTGATAATAGTACT---CGGCCTGGT------------------ ---AATAATACTGAA-------------------AAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43544.1|gb|MF778141 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43544.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43544.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATATTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGCTAAC-AAATTAAGG------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCT--------------------- ---AATAATACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------GATAACGCAAGC---- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTGCAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43550.1|gb|MF778147 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43550.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43550.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCAACTAATACCACA------------------- ---------------------GTTAATGATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGCTAAC-AAATTAAGG------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAATACTGAA-------------------AAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATACT---------AGCGAAAGC---- -----------------------------------GAGATCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43916.1|gb|MF778159 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43916.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43916.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAATATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GATATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGGAGCA AAATGGAATAACACTTTAAAACAGATAGCTAAC-AAATTAAGG------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCTGGT------------------ ---AATAATACTGAA-------------------AAT------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATACT---------AGCGAAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43913.1|gb|MF778156 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43913.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43913.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAGCTTGAAT---------ATAACTAC TGGTTCGAATACT---------------------------------ACGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTCAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACACTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAAAAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACMGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGTAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA-------------GAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGAAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43519.1|gb|MF778137 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43519.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43519.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCGTCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAGCTTGAAT---------ATTACTAC TGGTTCGAATACT---------------------------------ACGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTGTGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGTAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA-------------GAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGAAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43911.1|gb|MF778154 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43911.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43911.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAGCTTGAAT---------ATTACTAC TGGTTCGAATACT---------------------------------ACGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGCTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGAATGTGTACAAACGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGTAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA-------------GAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGAAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAGATATGAGGGACAATTGGAGG AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAARGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43915.1|gb|MF778158 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43915.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43915.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAGCTTGAAT---------ATTACTAC TGGTTCGAATACT---------------------------------ACGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGCTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTGTGTACAAACGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGTAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTGAA-------------GAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATACT---------AGCGAAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43552.1|gb|MF778149 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43552.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43552.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATATTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAATATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ACTACTAC TGGTTCGAATAAT---------------------------------ATG------------------------------- ------------------------------ACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATGTTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAAAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTGAA------GAG-TCACAGGAC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43549.1|gb|MF778146 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43549.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43549.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAATATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------ACTACTAC TGGTTCGAATAAT---------------------------------ATG------------------------------- ------------------------------ACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATGTTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAAAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTGAA------GAG-TCACAGGAC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43516.1|gb|MF778136 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43516.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43516.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGGGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGAACATAATGGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT---TGGCCT--------------------- ---AATAATACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATACT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43543.1|gb|MF778140 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43543.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43543.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTCTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTGAA------GAG-TCACAGGAC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43548.1|gb|MF778145 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43548.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43548.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATT---AC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTGAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAAAAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTCTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTGAA------GAG-TCACAGGAC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43523.1|gb|MF778139 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43523.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43523.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGGGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACGAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTGAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAAAAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTCTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTGAA------GAG-TCACAGGAC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43551.1|gb|MF778148 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43551.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43551.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGGGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTGAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAAAAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTCTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTGAA------GAA-TCACAGGAC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43912.1|gb|MF778155 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43912.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43912.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACYTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAATACTGGA------AGG-TCAGAGGGC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGAAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43554.1|gb|MF778150 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43554.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43554.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGGGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTA-------------------------- -CAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAAAAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGCCTGATAATAGTACT---TGG------------------------ ---AATGGTACTGAA------GAG-TCACAGGGC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43513.1|gb|MF778135 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43513.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43513.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGGGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAT-TCAGAGGGC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGAGAAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43909.1|gb|MF778152 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43909.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43909.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------TTGAAT---------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAATGATATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACGGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTGAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAT-TCAGAGGGC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGAGAAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43547.1|gb|MF778144 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43547.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43547.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTRGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTGAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAT-TCAGAGGGC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGAGAAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43545.1|gb|MF778142 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43545.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43545.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTGAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACTGGA------AAT-TCAGAGGGC---------------------------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGAGAAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43546.1|gb|MF778143 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43546.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43546.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAATATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT------------------------------------------------------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAGTAAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGAAAATACTAAGACCATAATAGT ACAGCTAAAAGAACCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AACAGTACT---TGGACTGAT------------------ GATAATAGTACTGAA----------CCACAGGGCAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------GATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43914.1|gb|MF778157 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43914.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2003] [note=days-post-seroconversion:1524 viral-load:8800 CD4-count:601 CD8-count:388 gene:env] HIV-1 viroverse:43914.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAATATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT------------------------------------------------------ATTACTAC TGGTTCGAATAAT---------------------------------GCGACTAATACCACA------------------- ---------------------GTTAGTAAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATCTCTCGGAAAATACTAAGACCATAATAGT ACAGCTAAAAGAACCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTACCAGTACTTGG------AACAGTACT---TGGACTGAT------------------ GATAATAGTACTGAA----------CCACAGGGCAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAGT------GATAACGCAAGC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45107.1|gb|MF778166 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45107.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45107.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCGCTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAATTGC---------------------------------------------------------------TCTAC TGGTTCGAATAAT---------------------------------GCGACTAATGCCACA------------------- ---------------------GTTAATGATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT TAATGGAACAGGACTGTGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGTAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTAAA-------------GAGGGCAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATGATACT---------AGCGCAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44806.1|gb|MF778162 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44806.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:44806.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATATAGTACCAATA-AAGGGT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGGACAATGCTGAGATCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AACAGTACT---TGGACTGAT------------------ GCTAATAGTACTGCA------GGA-ACACAGGAC---------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATCACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACGAAAGC---A AG---------------------------------GAGATCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45123.1|gb|MF778170 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45123.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45123.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGAYCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AATACTAC TAGGTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATAYGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTGAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGGATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGCTAATAGTACT---TGGCCT--------------------- ---AATAATACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATACT---------AGC---GAC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45144.1|gb|MF778175 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45144.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45144.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAARAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGAACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG--------------------------------------------- ---AATAGTACTGAA------GAG-TCACAGGACAATATCACACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44811.1|gb|MF778164 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44811.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:44811.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATATTAAGAACATAATAGT ACAACTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGGATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTACA------GAG-TCACAGGAC---------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCAAAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45124.1|gb|MF778171 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45124.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45124.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTCGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAGAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAT----------- ----GAGGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTGAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATATTAAGAACATAATAGT ACAACTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGGATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTACA------GAG-TCACAGGAC---------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCAAAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43678.1|gb|MF778161 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43678.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:43678.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCCGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACT-------------------------- -AGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGCTTTAGAACAGATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAGAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAAAATACT---------AGC---GAC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45143.1|gb|MF778174 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45143.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45143.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AATATTAC TAGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGCAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGGGGGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATACT---------AGCACATGC---A AC---------------------------------GAGACCTTCAGACCTGTGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45142.1|gb|MF778173 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45142.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45142.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AATATTAC TAGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGCAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGGGGGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATACT---------AGCACATGC---A AC---------------------------------GAGACCTTCAGACCTGTGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45352.1|gb|MF778182 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45352.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45352.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGAATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTGTTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGGAAAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATACT---------AGCACATGC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45346.1|gb|MF778180 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45346.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45346.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGAATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTGTTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGGAAAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATACT---------AGCACATGC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45342.1|gb|MF778178 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45342.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45342.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGAATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTTTGTTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGGAAAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATACT---------AGCACATGC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44810.1|gb|MF778163 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44810.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:44810.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACT-------------------------- -GATTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGCACGGGA------AAC-TCAGAACGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATATT---------AGCACAAGC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45122.1|gb|MF778169 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45122.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45122.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACT-------------------------- -GATTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAACGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAATATT---------AGCACAAGC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45344.1|gb|MF778179 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45344.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45344.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCAGGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AATGCT-- -GGGTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAAGGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGGATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGGACAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGGAGTGATAACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45121.1|gb|MF778168 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45121.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45121.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGAC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGGAGTGATAACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45353.1|gb|MF778183 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45353.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45353.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGTACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGGAGTGATAACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGRGA-GAAAAGAGA >gnl|viroverse|43670.1|gb|MF778160 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43670.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:43670.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGGGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGGAGTGATAACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44812.1|gb|MF778165 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44812.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:44812.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGGAGTGATAACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45116.1|gb|MF778167 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45116.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45116.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGGAGTGATAACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45141.1|gb|MF778172 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45141.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45141.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGAATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AATGCTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGGACAATGTTGAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGAGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATATT---------AGCACAAGC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45340.1|gb|MF778176 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45340.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45340.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AATGCTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GCCAATTTCTCGAACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAGAGCA AAATGGAATAAAGTTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTACGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGTAATATT---------AGCACAAGC---A AC---------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45341.1|gb|MF778177 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45341.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45341.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTCCGAATAAG---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATATAGTACCAATA-AAGGGT----------- ----GAGGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGGATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTT------ACTTGG------AATGATACT---TGG------------------------ ---AATGGTACTAAA------GAG-TCACAGGAC---------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTGCAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45351.1|gb|MF778181 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45351.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2004] [note=days-post-seroconversion:1901 viral-load:2900 CD4-count:409 CD8-count:302 gene:env] HIV-1 viroverse:45351.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAC TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATATAGTACCAATA-AAGGGT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATCCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTACA------GAA-TCACAGGAC---------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATG--GCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATCACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAATAGTGATAACGAAAGC---A AG---------------------------------GAGATCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45386.1|gb|MF778199 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45386.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45386.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAGTTGAAAAATGTAACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACT------------------------AC T---------------------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATATTAAGAACATAATAGT ACAACTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGGATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAATAAAACTGTTTGACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAATACTGGA------GGG-TCAGAGGAAGAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCAAAAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45385.1|gb|MF778198 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45385.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45385.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAGTTGAAAAATGTAACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACT------------------------AC T---------------------------------------------ATGACTAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGACAATATTAAGAACATAATAGT ACAACTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGGATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAAGAAGCCTGTTTGACAGTACTTGG------AATAGTACT---TGG------------------------ ---AATAATACTGGA------GGG-TCAGAGGAAGAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAGGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATGATACT---------AGCAAAAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCTACCAGGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45388.1|gb|MF778201 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45388.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45388.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGTACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCAAATAAT---------------------------------ACGGATAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTRATGATAAAGAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAGAACGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTCAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGACCTGTTTAGCAGTACTTGG------AATAGTACT---TGG------------------------ ---AATGGTACTACA------GAA-TCAGAGGAAAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45384.1|gb|MF778197 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45384.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45384.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ATCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTGTT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAGCTTGAAT---------AGTACTAC TAGTTCGAATACT---------------------------------ACGACTAATGCCACA------------------- ---------------------ATTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAGCCCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45387.1|gb|MF778200 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45387.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45387.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTGACT---------AATACTAC TGGTTTGAATAAT---------------------------------ACGGTTAATGTCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATA-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAACTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45175.1|gb|MF778187 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45175.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45175.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAAAAATACTACT-------------------------- -GGTTCGAATAAT------------------------------------------ACCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATA-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAACTGTACAAGACCCAATAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAGCCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45174.1|gb|MF778186 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45174.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45174.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AGTACTAC TGGTTCAAACAAT---------------------------------ACGGATAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGAGAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAACTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45173.1|gb|MF778185 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45173.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45173.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AGTACTAC TGGTTCAAACAAT---------------------------------ACGGATAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GGTGAGAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAACTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45188.1|gb|MF778192 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45188.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45188.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGTACTAAT---------------------TTGAATAATACTACT-------------------------- -AGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGACATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAACTGTACAAGACCCAATAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAACTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45182.1|gb|MF778188 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45182.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45182.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTGTTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACCCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGTACTAAT---------------------TTGAATAATACTACT-------------------------- -AGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGACATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCGTCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAACTGTACAAGACCCAATAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAACTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45380.1|gb|MF778194 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45380.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45380.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGTACTAAT---------------------TTGAATAATACTACT-------------------------- -AGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAGGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAACTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAAATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45185.1|gb|MF778191 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45185.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45185.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTYGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAT TGGTTCGAATGAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATA-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGAYATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAACTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45390.1|gb|MF778203 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45390.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45390.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGACT---------AATACTAT TGGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATA-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGACAATATTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-GAACTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAG----------------GGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGATGATACT---------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45183.1|gb|MF778189 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45183.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45183.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAGTTGAAAAATGTAACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACT-------------------------- -AACTTGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTAAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACCA TAATCTTTAACTCCTCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGTAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTAAA-------------GAGGACAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATGATACT---------GACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45383.1|gb|MF778196 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45383.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45383.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAGTTGAAAAATGTAACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACT-------------------------- -AACTTGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTAAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACCA TAATCTTTAACTCCTCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGTAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTAAA-------------GAGGACAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATGATACT---------GACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45382.1|gb|MF778195 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45382.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45382.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAGTTGAAAAATGTAACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATATTACT-------------------------- -GGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAG----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACGCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGGTAATAGTACT---TGGCCTGGT------------------ ---AATAGTACTAAA-------------GAGGACAAT------------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGCGGTGATGATACT---------GACGCAAAC---- -----------------------------------GAGACCTTCAGACCTGAAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45163.1|gb|MF778184 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45163.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45163.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCGAATAATGA------------------------------TACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGGCCTGTTTAACAGTACTTGGAATAGGAATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45189.1|gb|MF778193 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45189.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45189.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGCCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCGAATAATGA------------------------------TACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGGCCTGTTTAACAGTACTTGGAATAGGAATAGTACT---TGG------------------------ ---AATAGTACGGGA------AAC-TCAGAGCGCAGT------------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45184.1|gb|MF778190 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45184.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45184.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAA---------AATACTAC TGGTTCGAATAATAA------------------------------TACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATCCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TATTCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTT------ACTTGG------AATGATACT---TGG------------------------ ---AATGGTACTACA----------------GGA------ACACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATCACAGGGCTACTATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACGAAAGC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTGCAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45389.1|gb|MF778202 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45389.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2005] [note=days-post-seroconversion:2266 viral-load:9400 CD4-count:585 CD8-count:519 gene:env] HIV-1 viroverse:45389.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAGAACGCTTTAAAACAGATAGCTGAC-AAATTAAAA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAGCAAACCTGTTT------ACTTGG------AATGATACT---TGG------------------------ ---AATGGTACTACA----------------GGA------ACACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATCACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACGAAAGC---A AG---------------------------------GAGACCTTCAGACCTGTGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43857.1|gb|MF778212 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43857.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43857.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGTTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGCTGAC-AAATTAAAA------GAACAA---TTT------GGGAAAAAAACAA TATTCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAGCAAACCTGTTT------ACTTGG------AATGATACT---TGGAATGGT------------------ ------ACTACAGGG----------TCAGAGGAAAAT------------AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTGGTGATGATACT------AGAGAAAAT---- -----------------------------------GAGACCTTCAGACCGGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43858.1|gb|MF778213 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43858.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43858.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCGTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AAACAA---TTT------GAGAAGAAAACAA TAATCTTCAAATCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AATACTGCAGGA-------------------------ATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43853.1|gb|MF778208 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43853.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43853.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGCATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACT-------------------------- -------AATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGATATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AATATTACTGAAGAGTCACAGGTC--------------- ---AATATCACACAG-------------------------------GACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGAGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43865.1|gb|MF778220 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43865.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43865.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATACTACTACTAGCTTGGAT---------ATAACTAC T---------------------------------------------GATTCGAATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCGGTAGCATCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTAAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACCA TAATCTTTAGCCCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTATTTGG------AATAGTACTGAAGAGTCACAGGGC--------------- ---AATATCACACAGGGCAATATC-ACACAGGGCAATATCACACAG---GGC---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGCGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43868.1|gb|MF778223 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43868.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43868.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAGGGGGGATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAGGTGCACTAAT---------------------TTGAATAATACTACTAACTTGAAT---------AAT---AC TGGTTTGAATAAT---------------------------------GCAACTAATACTACA------------------- ---------------------GTTAATCATACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACCAGACCCAACAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AAGATTACTGAAGAGTCACAGGTC--------------- ----------------------------------AATATCACACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAATGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGAGATACT---------AGCGACAAC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43851.1|gb|MF778206 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43851.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43851.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATGGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AAACAA---TTT------GAGAAGAAAACAA TAATCTTCAAATCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AATACTGCAGGA-------------------------ATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43852.1|gb|MF778207 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43852.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43852.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AAACAA---TTT------GAGAAGAAAACAA TAATCTTCAAATCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AATACTGCAGGA-------------------------ATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43861.1|gb|MF778216 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43861.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43861.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AAACAA---TTT------GAGAAGAAAACAA TAATCTTCAAATCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AATACTGCAGGA-------------------------ATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43864.1|gb|MF778219 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43864.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43864.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAACTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AAACAA---TTT------GAGAAGAAAACAA TAATCTTCAAATCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AATACTGCAGGA-------------------------ATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43866.1|gb|MF778221 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43866.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43866.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGTTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGGCAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AAACAA---TTT------GAGAAGAAAACAA TAATCTTCAAATCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AATACTGCAGGA-------------------------ATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43855.1|gb|MF778210 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43855.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43855.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-ATTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGTTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTT------------------------TTAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AAACAA---TTT------GAGAAGAAAACAA TAATCTTCAAATCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AATACTGCAGGA-------------------------ATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43867.1|gb|MF778222 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43867.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43867.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAGTTGAAAAATGTAACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATATTACT-------------------------- -GGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAG----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACGCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATAAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGCCTGCTAATAGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43859.1|gb|MF778214 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43859.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43859.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAGTGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAGTTGAAAAATGTAACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATATTACT-------------------------- -GGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAAGAG----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACGCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATTAGATCT-GAAAATTTCTCGAACAATGCTAAGACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGCCTGCTAATAGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43860.1|gb|MF778215 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43860.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43860.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTATGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCGTCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------CTGAATAGTACTACT-------------------------- -AGTTCGAATAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGATAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTAYA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATAAAACCA TAATCTTTAACTCATCCTCC---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCATGCTAATGGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAGT---- -----------------------------------GAGACCTTCAGACCTGTGGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43850.1|gb|MF778205 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43850.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43850.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATACTACTACTAGCTTGAAT---------ATAACTAC GGATTCG---------------------------------------------AATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT T-----------------------------------ACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGAA----------GGGGCAGAGGGCAAT---------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGCGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43869.1|gb|MF778224 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43869.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43869.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATACTACTACTAGCTTGAAT---------ATAACTAC TGATTCG---------------------------------------------AATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGCT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGTAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGAA----------GGGGCAGAGGGCAAT---------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGCGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43854.1|gb|MF778209 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43854.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43854.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAGCTTGAAT---------AGTACTAC TAGTACGAATACT---------------------------------ACGACTAATACCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGT---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGAAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCATGATAATAGTACT---TGGAATGGT------------------ ---------ACTGGA----------GAGGCAGAGAGCAAT---------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGCGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43863.1|gb|MF778218 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43863.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43863.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAGCTTGAAT---------AGTACTAC TAGTACGAATACT---------------------------------ACGACTAATACCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGAAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCATGATAATAGTACT---TGGAATGGT------------------ ---------ACTGGA----------GAGGCAGAGAGCAAT---------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGCGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43862.1|gb|MF778217 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43862.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43862.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GGTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATACTACTACTAGCTTGAAT----------------- -GATTCG---------------------------------------------AATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGAAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCATGATAATAGTACT---TGGAATGGT------------------ ---------ACTGAA----------GGGGCAGAGGGCAAT---------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGCGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43856.1|gb|MF778211 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43856.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43856.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATACTACTACT------------------ATAACTAC TGATTCG---------------------------------------------AATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-AAGGAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGAAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGTACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCATGATAATAGTACT---TGGAATGGT------------------ ---------ACTGAA----------GAGGCAGAGGGCAAT---------ACA---------------ACTATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAAATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGCGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|43849.2|gb|MF778204 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43849.2] [isolation-source=plasma from subject F6] [collection-date=Nov-2006] [note=days-post-seroconversion:2632 viral-load:2300 CD4-count: CD8-count: gene:env] HIV-1 viroverse:43849.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAACTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCGAATGAT------------------------------------------ACGGCT------------------- ---------------------AATGTCACAGTA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAACACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGCTAATAGTACT------------------------TGGCCT ATTACTTGGCCTGTTAATAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAGA------------GATACTAGCGAC---A AT---------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44709.1|gb|MF778234 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44709.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44709.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGAGTCACAGTCTATTACGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAG---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCAACACAGA CTTAAGAGACAAGATGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGAAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGGCCTGTTTAGCAGTACTTGGAATAGGAATAGTACT---GGG------------------------ ---AATAGTACTGGGAATGGT----CCTACAGGATCAGAGGAAAAT---AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATCACAGGGCTACTATTAACAAGGGATGGTGGTAATAGT------------AACGAAAGC---A AG---------------------------------GAGATCTTCAGACCTGTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44944.1|gb|MF778239 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44944.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44944.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAG---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCAACACAGA CTTAAGAGACAAGATGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGGCCTGTTTAGCAGTACTTGGAATAGGAATAGTACT---TGG------------------------ ---AATAGTACTGGGAATGGT----ACTACAGAATCAGTGGAAAAT---AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGAAAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGAT------------------AACGAAAGC---A GG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44943.1|gb|MF778238 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44943.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44943.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTCTTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTAACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCAACACAGA CTTAAAAGACAAGTTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTGAC-AACTTAAGA------GAACAA---TTTGGG---GAGAATACAACAC TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGGCCTGTTTAGCAGTATTTGGAATAGGAATAGTACT---TTG------------------------ ---AATAGTACTGGGAATGGT----ACTACAGAATCAGCGGAAAAT---AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGTTAACGAAAGC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45450.1|gb|MF778242 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45450.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:45450.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAG---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCAACACAGA CTTAAGAGACAAGATGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGGCAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAGGCCTGTTTAGCAGTACTTGGAATAGGAATAGTACT---GGG------------------------ ---AATAGTACTGGGAATGGT----CCTACAAAATTAGAGGAAAAT---AAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATCACAGGGCTACTATTAACAAGAGATGGTGGTAATAGTAAC------------GAAAGC---A AG---------------------------------GAGATCTTCAGACCTGTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAGGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44710.1|gb|MF778235 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44710.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44710.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTCTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAGTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGATCCGAATAAT------------------------------------------ACGGCA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGAAAATTAGTTGTACAAGACCCAACAACAACACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGAG---AAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT------------------------TGGCCT ACTACTTGGCCTGTTAATAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGCTAGA---AGT------GATAACGAAAGC---A GG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44708.1|gb|MF778233 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44708.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44708.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTCTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAGTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGATTTGAATAAT------------------------------------------ACGGCA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACCCATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGAAAATTAATTGTACAAGACCCAACAACAACACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGAG---GAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGCTGATAGTACT------------------------TGGCCT ACTACTTGGCCTGTTAATAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGATAGA---AGT------GATAACGAAAGC---A GG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44707.1|gb|MF778232 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44707.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44707.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCAACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAGTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGATTCGAATACT------------------------------------------ACGGCA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGTAATTAATTGTACAAGACCCAACAACAACACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AGGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAAYGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT------------------------TGGCCT ACTACTTGGCCTGTTAATAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATATTAGT---GAAAACGAAAAC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44946.1|gb|MF778241 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44946.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44946.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAAATTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGACATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGCATT ACTTTAAGTTGCACTAAT---------------------TTGAATAATACTACT-------------------------- -------AGTAAT---------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---AACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAAGAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AATATTACTGAAGAGTCACAGGTC--------------- ---AATATCACACAG-------------------------------GACACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT ACAGAGA-GAAAAGAGA >gnl|viroverse|44704.1|gb|MF778229 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44704.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44704.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCAACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAGTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGATTCGAATACT------------------------------------------ACGGCA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGTAATTAATTGTACAAGACCCAACAACAACACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT------------------------TGGCCT ACTACTTGGCCTGTTAATAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATATTAGT---GAAAACGAAAAC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44705.1|gb|MF778230 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44705.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44705.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCAATATCAACACAGA CTTAAGAGACAAGATGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTCAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAATAATTAGATCT-GAAAATTTTTCGGAAAATACTAAGAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AAACAA---TTT------GAGAAGGAAACAA TAATCTTCAAATCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAGCCTGTTTGACAGTACTTGGAACAGTAATTGGACTGATGATAAT--------------------- ---AATACTGCAGCA-------------------------ACACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATCACAGGGCTGCTAATAACAAGAGATGGTGGTAATAGTAATGGT------AACACAAGC---- -----------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45453.1|gb|MF778244 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45453.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:45453.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCAACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAGGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAARTAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAGTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGATTCGAATACT------------------------------------------ACGGCA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGTAATTAATTGTACAAGACCCAACAACAACACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AGGAATAAAACAA TAATCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCCTGATAATAGTACT------------------------TGGCCT ACTACTTGGCCTGTTAATAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAATAATATTAGT---GAAAACGAAAAC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44711.1|gb|MF778236 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44711.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44711.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACRATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGCCTGCTAATAGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44706.1|gb|MF778231 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44706.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44706.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGCCTGCTAATAGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44942.1|gb|MF778237 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44942.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44942.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATATTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAATTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------GGACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGCCTGCTAATGGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAAAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATRTTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44702.1|gb|MF778227 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44702.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44702.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATACTACTACTAGCTTGAAT---------ATAGCTAC TGATTCG---------------------------------------------AATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GATGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAAGAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGACTCAACAAACCTGTTTGACAGTATTTGGCCTGCTAATAGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44700.1|gb|MF778225 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44700.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44700.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAGTTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGRCCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGCCTGCTAATGGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44703.1|gb|MF778228 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44703.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44703.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATACTACTACTAGCTTGAAT---------ATAACTAC TGATTCG---------------------------------------------AATACCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GATGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGCCTGCTAATGGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44945.1|gb|MF778240 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44945.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44945.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GATGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGCCTGCTAATGGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45452.1|gb|MF778243 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45452.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:45452.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTYAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAGTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGATTCGAATAAT---------------------------------ACGGCA---------------------------- ---------------------GGTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGCTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACGA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGCCTGCTAATGGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGATAAC------------------GAAAGC---A GG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44701.1|gb|MF778226 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44701.1] [isolation-source=plasma from subject F6] [collection-date=Nov-2007] [note=days-post-seroconversion:2982 viral-load:4400 CD4-count:653 CD8-count:638 gene:env] HIV-1 viroverse:44701.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGCCTGCTAATGGTACT---TGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45281.1|gb|MF778248 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45281.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45281.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA------------------ ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GGGGATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AACACTGCAGAAATACAGGAC-AAAAATGACACACTCCAACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTATTAACGAAAGCAGG------------------- -----------------------------------GAGATCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45295.1|gb|MF778261 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45295.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45295.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA------------------ ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GGGGATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAAAACTGATGATAAT--------------------- ---AATACTACAGGAATACAGGGC-GAAAATAACACACTCCAACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAAC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45287.1|gb|MF778254 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45287.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45287.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAGGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAGATTGCACTAAT---------------------TTGAATAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAATTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACCGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGACGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGCCTGCTAATAGTACT---GGGCCTAAT------------------ ---GAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAGGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45462.1|gb|MF778263 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45462.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45462.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTTCTACTAACTTG-------------------- ----------------------------------------------ACTGGTAATGTCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GATGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCGGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAGTTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCGACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGGGTAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGG------AATATTACTGAAGAGTCACAGGTC--------------- ---AATATCACACAG----------------GTCAATATCACACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45292.1|gb|MF778258 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45292.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45292.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAGGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAGATTGCACTAAT---------------------TTGAATAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAATTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45296.1|gb|MF778262 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45296.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45296.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAGATTGTACTAAT---------------------TTGAATAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAATTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAAAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGC-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45278.1|gb|MF778246 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45278.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45278.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAAAGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATTTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45277.1|gb|MF778245 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45277.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45277.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATAAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGATTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAGCAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAG CTTAAAAGACAAGGTGCAGAAGCAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAAATATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AATAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATGATACT------------------------TGGCCT AGTACTTGGTTTGTTAATAGTACC-TGGCCTGATAAGACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAGTAATAATAGTGAGAACGAAGAC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAGAGA >gnl|viroverse|45283.1|gb|MF778250 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45283.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45283.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT GCTTTAAAGTGCACTAAT---------------------TTGAATGATACTACTAACTTGAAA---------AATACTAC TGATCCAAATAAT---------------------------------GCAACTAATACTACA------------------- ---------------------GTTAAGGATACA--------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGAAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAAGGGAACAGGACTATGTACAAATGTTAGCACGGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAATTAC TGTTGAATGGCAGCTTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGATAACATAATAGT ACAGCTAAATGAAACTGTGAAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-GAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGCTTGCTAAGGATCCT------------------------TGGCCT AGTACTTGGCCTGTTAATAGTACT-TGGTCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATCACAGGGCTGCTATTAACAAGAGATGGTGATAAAAATACT------------GGCGAC---A AT---------------------------------GAGACCTTCAGACCGGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45280.1|gb|MF778247 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45280.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45280.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTAACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCTTGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------CTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAAATATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AATAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATGATACT------------------------TGGCCT AGTACTTGGTTTGTTAATAGTACT-TGGCCTGATAAGACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAGTAATAATAGTGAGAACGAAGAC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45284.1|gb|MF778251 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45284.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45284.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAAACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AATAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATGATACT------------------------TGGCCT AGTACTTGGTTTGTTAATAGTACT-TGGCCTGATAAGACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAGTAATAATAGTGAGAACGAAGAC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAGAGA >gnl|viroverse|45294.1|gb|MF778260 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45294.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45294.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAAACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AATAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATGATACT------------------------TGGCCT AGTACTTGGTTTGTTAATAGTACT-TGGCCTGATAAGACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTAAGAGTAATAATAGTGAGAACGAAGAC---A AG---------------------------------GAGACCTTCAGACCTGTAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAAAGA-GAAAAGAGA >gnl|viroverse|45290.1|gb|MF778256 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45290.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45290.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGTTATTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AATAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCTTGCTAATAGTACT---GATAATAATACT---------TGGCCT ACTACTTGGCTTGTTAATAGTACT-TGGACTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAACATTACAGGGCTGCTATTAACAAGAGATGGTAATAACGAAAGCAGC------------------- -----------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45286.1|gb|MF778253 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45286.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45286.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis AAGTGAGGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTAACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----AATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAATAATACAAGAAAAAGTATAAATATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGCAGCA AAATGGAAGAAAGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAATATTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAGCAGGCCTGTTTAGCAGTACTTGGAATAGGAATAGTACT---TTG------------------------ ---AATAGTACCGGGAATGGT----ACTAAAGAATCAGCGGAAAAT---AAA---------------AATATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGTTAACGAAAGC---A AG---------------------------------GAAACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45285.1|gb|MF778252 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45285.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45285.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAGAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTAACAGAAAATTTTAACATGTGGAAAAACAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ACGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGAAT----------- ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAATAATACAAGAAAAAGTATAAATATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGCAGCA AAATGGAATAAAGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAATATTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAGCAGGCCTGTTTAGCAGTACTTGGAATAGGAATAGTACT---TTG------------------------ ---AATAGTACCGGGAATGGT----ACTAAAGAATCAGCGGAAAAT---AAA---------------AATATCACACTCC AATGTAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGTTAACAAAAGC---A AG---------------------------------GAAACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45282.1|gb|MF778249 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45282.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45282.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC GGGT------------------------------------------------AATGTCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAAGTTAATAAGTTGTAACACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTTTCGGACAATCTTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAATACAACA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGTATGCTAATGGTACT---GGGCCTAATAAGACTGAAACAAGGCAT GCTAATGGTACTGGGCCTAAT----------AAGACTGAA---------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAT------------GATACTAGAGAC---A AT---------------------------------GAGACCTTCAGACCCATAGGAGGAAACATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45293.1|gb|MF778259 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45293.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45293.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACTCTATTTTGTGCGTCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC GGGT------------------------------------------------AATGTCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAGTG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAAGTTAATAAGTTGTAACACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTTTCGGACAATCTTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAATACAACA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGCATGCTGATGGTACT---GGGCCTAATAAGACTGAA--------- ---ACAAGTACTGGGCCTAAT----------AAGACTGAA---------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAT------------GATACTAGAGAA---A AT---------------------------------GAGACCTTCAGACCCATAGGAGGAAACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45463.1|gb|MF778264 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45463.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45463.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAGTGCACTAAT---------------------TTGAATAGTACTACTAACAGT---------------ACTAC TAACTTGACTGAT---------------------------------TCGAATACTACGGCA------------------- ---------------------GGTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAACATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCACTA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTTTCGGACAATCTTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAATACAACA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGACTAAAGCAA TAATCTTTAGCTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGTATGCTAATGGTACT---GGGCCTAATAAGACTGAA--------- -------------------------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAT------------GATACTAAAGAA---A AT---------------------------------GAGACCTTCAGACCCATAGGAGGAAACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45289.1|gb|MF778255 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45289.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45289.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCCACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCTACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAATGTAATGATAAACAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGGA----------AGGGAAGAGGGCAAT---------ACA---------------ACTATCATACTCC AATGCAGGATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45291.1|gb|MF778257 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45291.1] [isolation-source=plasma from subject F6] [collection-date=Jun-2009] [note=days-post-seroconversion:3581 viral-load:1581 CD4-count:663 CD8-count:782 gene:env] HIV-1 viroverse:45291.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCYATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTCGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTCATTAGATTT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAATAGCTAAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTAACCCATCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGAA----------GGGGCAGAGATCAAT---------ACA---------------ACTATCATACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44828.1|gb|MF778273 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44828.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44828.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTTTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTAACAGAAAAGTTTAACATGTGGAAAAACAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA------------------ ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGGACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGCACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAGACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GAGAATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AACACTGACGAAAATAAC-------------TCACTTCAACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAAGAATAGTAGTGTTAATGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45250.1|gb|MF778278 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45250.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45250.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTTTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTAACAGAAAAGTTTAACATGTGGAAAAACAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA------------------ ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGGACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGCACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAGACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GAGAATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAGTACTGATGATAAT--------------------- ---AACACTGACGAAAATAAC-------------CCACGTCAACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAAGAATAGTAGTGTTAATGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44824.1|gb|MF778269 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44824.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44824.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------CTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGAAT----------- ----AATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTGATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGCACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAGACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GAGAATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAATACTGATGATAAG--------------------- ---AATACTACAGGAATACAG-------AATACTACAGAAATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGGAATGGTAGTGTTAACGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44827.1|gb|MF778272 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44827.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44827.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA------------------ ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTGATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGCACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAGACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GAGAATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAATACTGATGATAAG--------------------- ---AATACTACAGGAATACAG-------AATACTACAGAAATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGGAATGGTAGTGTTAACGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGGAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44820.1|gb|MF778265 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44820.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44820.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA------------------ ----GATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTGATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGCACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAGACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GAGAATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAATACTGATGATAAG--------------------- ---AATACTACAGGAATACAG-------AATACTACAGAAATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGGAATGGTAGTGTTAACGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44823.1|gb|MF778268 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44823.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44823.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGATTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAGAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TAGTTCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----AATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGCGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGCACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAGACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GAGAATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAATACTGATGATAAG--------------------- ---AATACTACAGGAATACAG-------AATACTACAGAAATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGGAATGGTAGTGTTAACGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45251.1|gb|MF778279 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45251.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45251.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGATTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TAGTTCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAA--GACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----AATAAT------ATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGCGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGGGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGCACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAACGTTAGTGAAGCA AAATGGAATAAAGCTTTAAGACAGATAGCTGAC-AAATTACAA------GAACAA---TTT------GAGAATAAACCAA TATTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACATACCTGTTTAGCAGTACTTGG------AACAATACTGATGATAAG--------------------- ---AATACTACAGGAATACAG-------AATACTACAGAAATACAGGACAAA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGGAATGGTAGTGTTAACGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44826.1|gb|MF778271 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44826.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44826.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCCACCACCACCCTATTTTGTGCATCAGATGYTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCTACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGA---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAATGTAATGATAAACAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGGGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAATGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGGA----------GGGGAAGAGGGCAAT---------ACA---------------ACTATCATACTCC AATGCAGGATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44829.1|gb|MF778274 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44829.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44829.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCCACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCTACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAAGAT----------- ----GATAAT------ACTAGA---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAATGTAATGATAAACAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT A-CGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAATGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTATTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGGA----------AGGGAAGAGGGCAAT---------ACA---------------ACTATCATACTCC AATGCAGGATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATAGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45256.1|gb|MF778284 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45256.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45256.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCCACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCTACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGGTATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTCGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAATGTAATGATAAACAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGCAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGC------------------ ---------CCTGGA----------AGGGAAGAGGGCAAT---------ACA---------------ACTATCATACTCC AATGCAGGATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45249.1|gb|MF778277 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45249.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45249.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCCACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCTACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGA---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAATGTAATGATAAACAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAATGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACCA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGGA----------AGGGAAGAGGGCAAT---------ACA---------------ACTATCATACTCC AATGCAGGATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45248.1|gb|MF778276 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45248.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45248.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCCACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCTACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTCGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAATGTAATGATAAACAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGCAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGGA----------AGGGAAGAGGGCAAT---------ACA---------------ACTATCATACTCC AATGCAGGATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44822.1|gb|MF778267 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44822.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44822.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCCACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCTACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTCGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAATGTAATGATAAACAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGCAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AAGAATAAAACAA TAATCTTTGAACCATCTTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAACAGTACTTGGTATGATAACAGTACT---TGGAATGGT------------------ ---------ACTGGA----------AGGGAAGAGGGCAAT---------ACA---------------ACTATCATACTCC AATGCAGGATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTGTTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44825.1|gb|MF778270 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44825.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44825.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGT------------ACCATGCT CCTTGGGATGTTGATAATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTGCTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCCACA------------------- ---------------------GTTAATGAGAAA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GATGAT----------- ----GATAAT------ACTAGA---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACACTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAAGGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATTTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---TGG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44830.1|gb|MF778275 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44830.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44830.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCATCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGGAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGACATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATRCCACA------------------- ---------------------GTCAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGA---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGACTAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTGAT------------------ ---AAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT ACAGAGA-GAAAAGAGA >gnl|viroverse|45255.1|gb|MF778283 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45255.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45255.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGGAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGA---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGACTAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTGAT------------------ ---AAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT ACAGAGA-GAAAAGAGA >gnl|viroverse|45254.1|gb|MF778282 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45254.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45254.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGGAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGA---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAATGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGACTAAAACAA TAATTTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTGAT------------------ ---AAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT ACAGAGA-GAAAAGAGA >gnl|viroverse|45253.1|gb|MF778281 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45253.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45253.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ATGGCTAATGCCACA------------------- ---------------------GTTAAGGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAG------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAAGGTTAATGCAACA AAATGGAAGAACGCTTTAAAACAAATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATTTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAACTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45252.1|gb|MF778280 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45252.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:45252.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ATGGCTAATGCCACA------------------- ---------------------GTTAAGGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GATAAG------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATCAGACAAGCACATTGTAAGGTTAATGCAACA AAATGGAAGAACGCTTTAAGACAAATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAATAAAACAA TAATTTTTAACTCATCCTCA---GGAGGGAACCCAGAAATTGTAATGCACAATTTTAACTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|44821.1|gb|MF778266 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44821.1] [isolation-source=plasma from subject F6] [collection-date=Dec-2009] [note=days-post-seroconversion:3751 viral-load:7377 CD4-count:239 CD8-count:279 gene:env] HIV-1 viroverse:44821.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGATTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGGAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAGTGCACTAAT---------------------TTGAATAGTACTACTAACAGT---------------ACTAC TAACTTGACTGAT---------------------------------TCGAATACTACGGCA------------------- ---------------------GGTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAACATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCACTA-GAGGAT----------- ----GATAAT------AAGAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTTTCGGACAATCTTAAGAACATAATAGT ACAGCTAAATGAATCTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTACTGTTAATACAACA AAATGGAATAAAGCTTTAAAACAGATAGCTGAC-AAATTAAGG------AGACAA---TTT------AAGAAGGAAACAA TAGTCTTTGCACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTAGCAGTACTTGGTATGCTAATGGTACT---GGGCCTAATAAGACTGAAACAAGGCAT GCTAATGGTACTGGGCCTAAT----------AAGACTGAA---------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAATATGTGGCAGGAAGTAGGG-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAT------------GATACTAGAGAC---A AT---------------------------------GAGACCTTCAGACCCATAGGAGGAAACATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42746.1|gb|MF778293 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42746.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42746.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCCACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATAAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTAACTTG------------------AC TGGTTCG---------------------------------------ACGGCTAATGCTACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGGT----------- ----GATAAT------ACTAGA---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACACGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAATGAAACA AAATGGAAGAACGCTTTAAAACAAGTAGCTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGAAGAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTGACTCAACAAACCTGTTTAGCAGTACTTGGCTTGCTAATAGTACT---CGGTCTAAT------------------ ---GAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACAAAC---- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42741.1|gb|MF778288 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42741.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42741.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTATCAGCACTTGTGG------------AAATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTCTGTGCATCAGATGCTAARGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGTCTAAAGCCATGTGTAAAATTAACACCACTCTGTACT ACTTTAAATTGCACTAAT---------------------TTGAATAGTAATACTGACTTG------------------AC TGGTTCGAGTAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTACTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAATTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTAAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAGCCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTGAT------------------ ---AAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGACTGATATTAACAAGAGATGGTGGTAATAATAATAGTAATGTTAACGAAAGC---A AG---------------------------------GAAACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42988.1|gb|MF778296 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42988.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42988.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAAGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGACTAATACTACTAACTTG------------------AC TAGT------------------------------------------------AAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAAATG-AAAAACTGTTCTTTCAACATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCTAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGGAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---GGGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGTTAATGGTACTACTTGGCCTACT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACGAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCATA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42990.1|gb|MF778298 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42990.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42990.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGACTAATACTACTAACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGATA--------GGAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAGACAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---GAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGTATGATAATGGCACTACTTGGCCTAAT------------------ ---ACG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCRGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAAT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42747.1|gb|MF778294 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42747.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42747.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTTTGTATT ACTTTAAATTGCACTAAT---------------------TTGGATAGTACT---AACTTG------------------AC TGGTTCA---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAATACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAAGGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGGAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---AAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42744.1|gb|MF778291 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42744.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42744.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTTTGTATT ACTTTAAATTGCACTAAT---------------------TTGGATAGTACT---AACTTG------------------AC TGGTTCA---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAAGGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACTAGCACATTGTAAGGTTAATGGAACA AAATGGGAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---AAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42998.1|gb|MF778306 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42998.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42998.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGACAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTTTGTATT ACTTTAAATTGCACTAAT---------------------TTGGATAGTACT---AACTTG------------------AC TGGTTCA---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAAGGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGGAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---AAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AAG---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACARATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42742.1|gb|MF778289 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42742.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42742.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGACT---------AACTTG------------------AC TAGT------------------------------------------------AATGCCACA------------------- ---------------------GTTAATGAGACA--------GGAGAAATG-AGAAATTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---AAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTGAT------------------ ---GAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAGCAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42391.1|gb|MF778287 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42391.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42391.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTTTGTATT ACTTTAAATTGCACTAAT---------------------TTGGATAAGTAT---AACTTG------------------AC TGGTTCA---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---GGGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTAAT------------------ ---AGG---ATTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42390.1|gb|MF778286 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42390.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42390.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGYCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTTTGTATT ACTTTAAATTGCACTAAT---------------------TTGGATAAGTAT---AACTTG------------------AC TGGTTCA---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---AACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---AAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCGGAT------------------ ---GAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAGCAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42997.1|gb|MF778305 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42997.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42997.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTTTGTATT ACTTTAAATTGCACTAAT---------------------TTGGATAAGTAT---AACTTG------------------AC TGGTTCA---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAGATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAAGGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---AAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTGAT------------------ ---GAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAGCAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42992.1|gb|MF778300 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42992.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42992.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTTTGTATT ACTTTAAATTGCACTAAT---------------------TTGGATAAGTAT---AACTTG------------------AC TGGTTCA---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAAAAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---AAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTGAT------------------ ---GAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATA-AGCAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42987.1|gb|MF778295 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42987.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42987.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAAGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGATGTTAATGATTTGTAGT-GTTACAGGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACCCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTGACATGTGGGAAAATAACATGG TAGAACAAATGCATGAGGATATAATTAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTT------ ----TAAATTGCACTAAT---------------------TTGGATAAGTAT---AACTTG------------------AC TGGTTCA---------------------------------------ACGGCTAAGGCCACA------------------- ---------------------GTTAATGAGACA--------GAAGAAATG-AAAAACTGTTCTTTCAATATCACCACAGA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATATAGTACCAATA-GAGGAT----------- ----GGTGATAATACTACTAGC---------TATAGGTTAATAAGTTGCAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAAGTT CAATGGAAAAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGTTAAATGGCAGCTTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACACCATAATAGT ACAGCTAAATGAAACTGTGGAAATCAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAAGGTTAATGGAACA AAATGGAAGAACGCTTTAAAACAGATAGTTGAC-AAATTAAGA------AAACAA---TTTGGG---AAGGATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAATTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGGCAGTACTTGGTATGCTAATGGTACTACTTGGCCTGAT------------------ ---GAA---ACTGAA----------------------------------ACA---------------AATATCACACTCC AATGCAGAATAAAGCAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCGAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGCTATTAACAAGAGATGGTGGTGATAATAGT---------AGCACA------- -----------------------------------GAGACCTTCAGACCTGGAGGAGGAAATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42994.1|gb|MF778302 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42994.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42994.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAAGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTACT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAGTAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GGA-----------------GGAGAAGTG-AAAAACTGTACTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAATTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAGCCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTATAACGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GCTAATAGTACT------ACTTGGCCT ATTAATTGGCATGCTAATAGTACT-TGGTCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAAATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAAGAATAGTAATGCTAACGAAAGC---A AG---------------------------------GAGATCTTCAGACCTGTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42996.1|gb|MF778304 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42996.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42996.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTCTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAAGAGTACTACTGACTTG------------------AC TGATGCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTACTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT---ACTACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGCACACATGGAATCAGGCCAGTAGCATCAACTCAATTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGTTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAGCCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GCTAATAGTACT------ACTTGGCCT AGTACTTGGAATGTTAGTAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAAATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAATAATAGTAATGCTAACGAAAGC---A AG---------------------------------GAGATCTTCAGACCTGTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAACTATACAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42989.1|gb|MF778297 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42989.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42989.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGAAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAAATGTACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGATGCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTACTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT---ACTACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGCTAAATGGCAGCCTAGCAGAAGGTGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAGCCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GCTAATAGTACT------ACTTGGCCT GGTACTTGGAATGTTAGTAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAAGAATAGTAGTGTTAATGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTGGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42993.1|gb|MF778301 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42993.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42993.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTCTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGATGCGAGTAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTACTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGCTAAATGGCAGCCTAGCAGAAGGAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAGCCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GCTAATAGTACT------ACTTGGCCT AGTAATTGGCATGATAATAGTACT-TGGTCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAAGAATAGTAGTGTTAATAAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGATAATTGGAGA AGTGAATTATATAAATATAAAGTGGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42745.1|gb|MF778292 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42745.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42745.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACYCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTCTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGATGCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTACTTTCAATATCACCACAAA CTTAAGAGACAAGGTGCAGAAACAATATGCA-TTATTTTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGCTAAATGGCAGCCTAGCAGAAGGAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAGCCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GCTAATAGTACT------ACTTGGCCT CGTACTTGGAATGTTAGTAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAAGAATAGTAGTGTTAATGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTGGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGGGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42389.1|gb|MF778285 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42389.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42389.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTCTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGATGCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTACTTTCAATATCACCACAAA CTTAAGAGACAAGATGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTRTTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGCTAAATGGCAGCCTAGCAGAAGGAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAGCCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GTTAATAGTACT------ACTTGGCCT AGGACTTGGAATGTTAGTAGTACC-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAAGAATAGTAGTGTTAATGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTGGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42991.1|gb|MF778299 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42991.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42991.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAT GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTCTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGATGCGAATAAT---------------------------------ACGGCTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTACTTTCAATATCACCACAAA CTTAAGAGACAAGATGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----GATAAT------ACTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCGTT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGCTAAATGGCAGCCTAGCAGAAGGAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATAACTATA------GGAC CAGGGAGAGCATTTTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---GAGAATACAACAA TAGCCTTTGAACCATCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GTTAATAGTACT------ACTTGGCCT AGGACTTGGAATGTTAGTAGTACC-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAAGAATAGTAGTGTTAATGAAAGC---A AG---------------------------------GAGACCTTCAGACCGATAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTGGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|42743.1|gb|MF778290 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42743.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42743.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGAATTGGAAAATGTGACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGCTTATGGGATCAGAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----AATAATAATAATATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAGGGTT CAATGGAACAGGACTATGTACAAATGTTAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACTCAACTAC TGCTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAAAAA---TTTGGG---AATAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGAGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GCTAATAGTACT------ACTTGGCCT AGTACTTGGAATGTTAGTAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AGAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAAC---- -----------------------------------GAAACCTTCAGACCTGTAGGAAAAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42995.1|gb|MF778303 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42995.1] [isolation-source=plasma from subject F6] [collection-date=May-2011] [note=days-post-seroconversion:4267 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:42995.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCAGGAAGAATTGTCAGCACTTGTGG------------AGATGGGGC------------ACCATGCT CCTTGGGTTGTTAATGATCTGTAGT-GTTACAAGTCAGTTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAG GCAACCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGAGACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGAATTGAAAAATGTAACAGAAAATTTTAACATGTGGAAAAATAACATGG TAGAACAAATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACACCACTCTGTATT ACTTTAAATTGCACTAAT---------------------TTGAATAGTACTACTGACTTG------------------AC TGGTTCGAATAAT---------------------------------ATGACTAATGTCACA------------------- ---------------------GTA-----------------GGAGAAGTG-AAAAACTGTTCTTTCTATATCAACACAAA CTTAAAAGACAAGGTGCAGAAACAATATGCA-TTATTCTATAGTCTTGATGTAGTACCAATA-GAGGAT----------- ----AATAATAATAATATTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTTGAGCCAATTCCAATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAGGTT TAATGGAACAGGACTATGTACAAATGTTAGCRCAGTACAATGTACACATGGAATCAGGCCAGTAGCATCAACCCAACTAC TGTTAAATGGCAGCCTAGCAGAAGAAGAGGTAGTAATTAGATCT-AAAAATTTCTCGAACAATGCTGACAACATAATAGT ACAGCTAAATGAAACTGTGGAAATTAATTGTACAAGACCCAGCAACAATACAAGAAGGAGTATAACTATA------GGAC CAGGGAGAGCATTCTATGCAACA---GACATA------ATAGGAGATATAAGACAAGCACATTGTAATGTTAGTGAAGCA AAATGGAAAAACACTTTAAAACAGATAGTTGAC-AAATTAAGA------GAACAA---TTTGGG---AATAATAAAACAA TAATCTTTAACTCATCCTCA---GGAGGAGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGGGAATTTTTC-T ACTGTAACTCAACAAACCTGTTTGACAGTACTTGGCCTGCTAATAGTACT---GCTAATAGTACT------ACTTGGCCT AGTACTTGGAATGTTAGTAGTACT-TGGCCTAATAATACT---------GCA---------------AATATCACACTCC AATGCAGAATAAAACAAATTGTAAACATGTGGCAGGGAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACAAAT TAGATGTTCATCAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAATAGTAGTGATAACACAAAC---- -----------------------------------GAAACCTTCAGACCTGTAGGAGGAAATATGAAGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTACAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41515.2|gb|MF778314 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41515.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41515.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41504.2|gb|MF778308 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41504.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41504.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGTACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTAGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41884.2|gb|MF778326 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41884.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41884.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTAGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41502.2|gb|MF778307 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41502.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41502.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGRTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41505.2|gb|MF778309 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41505.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41505.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41507.2|gb|MF778310 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41507.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41507.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCACTTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATATGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41513.2|gb|MF778312 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41513.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41513.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAATTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41517.2|gb|MF778316 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41517.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41517.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAATTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41519.2|gb|MF778318 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41519.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41519.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAATTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41520.2|gb|MF778319 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41520.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41520.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAATTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41514.2|gb|MF778313 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41514.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41514.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTTA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41508.2|gb|MF778311 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41508.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41508.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41518.2|gb|MF778317 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41518.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41518.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41523.2|gb|MF778322 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41523.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41523.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41525.2|gb|MF778324 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41525.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41525.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAAACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAGAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41524.2|gb|MF778323 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41524.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41524.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGACGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41521.2|gb|MF778320 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41521.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41521.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGACGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41516.2|gb|MF778315 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41516.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41516.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAAAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACGTGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41522.2|gb|MF778321 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41522.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41522.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAACTTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTAGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCRGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41883.2|gb|MF778325 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41883.2] [isolation-source=plasma from subject F7] [collection-date=May-2001] [note=days-post-seroconversion:172 viral-load: CD4-count:909 CD8-count:750 gene:env] HIV-1 viroverse:41883.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAARTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAAYAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47557.1|gb|MF778341 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47557.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:47557.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATGTGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTGAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTACTCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACAAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47564.1|gb|MF778343 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47564.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:47564.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTGAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTACTCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCTCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA GGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47565.1|gb|MF778344 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47565.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:47565.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTGCACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47566.1|gb|MF778345 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47566.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:47566.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTGCACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47558.1|gb|MF778342 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47558.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:47558.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGGGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47611.1|gb|MF778348 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47611.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:47611.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTACGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GAGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTAGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47605.1|gb|MF778347 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47605.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:47605.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGGGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTCAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47604.1|gb|MF778346 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47604.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:47604.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTGAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43125.1|gb|MF778329 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43125.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:43125.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGAG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAAGATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTGCACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATRGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43124.1|gb|MF778328 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43124.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:43124.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTGCACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43127.1|gb|MF778331 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43127.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:43127.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTGCACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44138.1|gb|MF778336 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44138.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:44138.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTGCACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44134.1|gb|MF778335 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44134.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:44134.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTGCACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGTCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43129.1|gb|MF778332 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43129.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:43129.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTGAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTACTCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43126.1|gb|MF778330 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43126.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:43126.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGAT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTACACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43441.1|gb|MF778333 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43441.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:43441.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGAT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGTACACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44140.1|gb|MF778337 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44140.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:44140.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTACGTGCACTAGTGGGAATAATACGGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44141.1|gb|MF778338 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44141.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:44141.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTACGTGCACTAGTGGGAATAATACGGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAARACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43123.1|gb|MF778327 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43123.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:43123.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGGGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAACTATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAATTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGAGAAAAAAAGA >gnl|viroverse|43447.1|gb|MF778334 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43447.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:43447.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTAAGGGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44227.1|gb|MF778339 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44227.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:44227.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTGAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44228.1|gb|MF778340 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44228.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2001] [note=days-post-seroconversion:355 viral-load:710 CD4-count:1328 CD8-count:1292 gene:env] HIV-1 viroverse:44228.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATGGCCCTAAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAAAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44874.1|gb|MF778360 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44874.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44874.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACATTAAATTGCACTGATTATCGCCCTCAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTCTCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACCTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44864.1|gb|MF778350 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44864.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44864.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAATTTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAGTCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAACA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44873.1|gb|MF778359 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44873.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44873.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGRGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTTGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44869.1|gb|MF778355 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44869.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44869.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATT---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44871.1|gb|MF778357 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44871.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44871.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAATCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44881.1|gb|MF778367 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44881.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44881.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAAGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44882.1|gb|MF778368 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44882.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44882.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GGGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44863.1|gb|MF778349 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44863.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44863.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44865.1|gb|MF778351 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44865.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44865.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44868.1|gb|MF778354 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44868.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44868.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44876.1|gb|MF778362 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44876.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44876.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44877.1|gb|MF778363 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44877.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44877.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44878.1|gb|MF778364 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44878.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44878.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44880.1|gb|MF778366 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44880.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44880.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCTCAGTACACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAAGGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44872.1|gb|MF778358 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44872.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44872.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44883.1|gb|MF778369 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44883.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44883.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAGGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44867.1|gb|MF778353 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44867.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44867.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTAGGAGGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44870.1|gb|MF778356 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44870.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44870.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44866.1|gb|MF778352 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44866.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44866.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGGGATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCTAATTGCCCTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44879.1|gb|MF778365 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44879.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44879.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCTAATTGCCCTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44875.1|gb|MF778361 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44875.1] [isolation-source=plasma from subject F7] [collection-date=May-2002] [note=days-post-seroconversion:530 viral-load:2600 CD4-count:1220 CD8-count:1045 gene:env] HIV-1 viroverse:44875.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCTAATTGCCCTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGATGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44634.1|gb|MF778373 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44634.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44634.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACCTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CATGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACGAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ GGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AACGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44638.1|gb|MF778377 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44638.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44638.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACCTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACGAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAACTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAAAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44630.1|gb|MF778370 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44630.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44630.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGGAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44637.1|gb|MF778376 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44637.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44637.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGGAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAATGAAGGGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44635.1|gb|MF778374 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44635.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44635.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACATT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------GGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44643.1|gb|MF778381 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44643.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44643.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------GGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44641.1|gb|MF778379 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44641.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44641.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTGTCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTAACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACATTAAATTGCACTGATTATCGCCCTCAGTGCACTAGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGGAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACATT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44642.1|gb|MF778380 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44642.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44642.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGTATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAAACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGG---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44636.1|gb|MF778375 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44636.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44636.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTGTCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCGTGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGGAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAGAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAAAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGG AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44632.1|gb|MF778371 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44632.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44632.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGCGCATCAGATGCTAAAGCATATGATACAGAAATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------------------GCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GGGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGGGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGTAGC------- --------------------GGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44633.1|gb|MF778372 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44633.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44633.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------------------GCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GGGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATCCATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAGTGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44640.1|gb|MF778378 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44640.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:44640.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------------------GCCAAT----------------------- -------------------------------------------------------ACAACG------------------- -----------------------------------------------ATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATGAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGAAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAGTGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AACGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45455.1|gb|MF778382 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45455.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:45455.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------------------GCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GGGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTACAGCA GAATGGAATGACACGTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAGTGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTGAAGAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45456.1|gb|MF778383 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45456.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:45456.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACATT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------GGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45457.1|gb|MF778384 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45457.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:45457.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATGATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45458.1|gb|MF778385 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45458.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:45458.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACCTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACGAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------AACGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45459.1|gb|MF778386 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45459.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:45459.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GARATG-AAAAAYTGCTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGRAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAAKAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGARTGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-YCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAARRGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45460.1|gb|MF778387 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45460.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:45460.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TATACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTGCCCT---------AGTGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGGGAAGGGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45461.1|gb|MF778388 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45461.1] [isolation-source=plasma from subject F7] [collection-date=Nov-2002] [note=days-post-seroconversion:696 viral-load:26000 CD4-count:1064 CD8-count:1170 gene:env] HIV-1 viroverse:45461.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCTAAGTGCACTAATGGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGTTCTTTCCAGGTTACCACAGG CGTAAGAGATAAGACGCAGGAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGTGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42949.1|gb|MF778402 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42949.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42949.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTGTCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTGGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAATGAAGAGACTAATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAGCCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42855.1|gb|MF778394 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42855.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42855.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGACAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTGTG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCCAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAAT------------- -----------------------GAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42957.1|gb|MF778407 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42957.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42957.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGTTCTTTCCAGGTTACCACAGA CGTAAAAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATA-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAG-TTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGAATAATAGT---------- --------------------AGCGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42947.1|gb|MF778400 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42947.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42947.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAA-AATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGGCAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGACTAATAGT---------- --------------------AACGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42963.1|gb|MF778412 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42963.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42963.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAAT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTACAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGAC---------------------------------------------- --------------------------ATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGACTAATAGT---------- --------------------AACGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41635.1|gb|MF778390 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41635.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:41635.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGACAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTACAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGAATAATAGT---------- --------------------AGCGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41634.1|gb|MF778389 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41634.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:41634.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGTTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGCAATGTTAGCAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAACAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------------ACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42956.1|gb|MF778406 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42956.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42956.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGACTAATAGT---------- --------------------AATGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42867.1|gb|MF778395 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42867.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42867.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTGTCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGGTCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTGTG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAAACAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42962.1|gb|MF778411 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42962.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42962.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCATGAAGAATTGTCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTGTG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAAACAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42961.1|gb|MF778410 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42961.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42961.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGAG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTGTG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42954.1|gb|MF778405 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42954.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42954.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAAAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT C------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -----TTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGAATAATAGT---------- --------------------GGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42853.1|gb|MF778393 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42853.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42853.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAAACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGAATAATAGT---------- --------------------GGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42958.1|gb|MF778408 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42958.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42958.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGAATAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42952.1|gb|MF778404 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42952.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42952.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCCCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGCTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42868.1|gb|MF778396 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42868.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42868.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATA-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAG------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42851.1|gb|MF778392 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42851.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42851.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTCTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGTACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAATGAAGAGACTAATAATAGT------- --------------------AACGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42946.1|gb|MF778399 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42946.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42946.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAAAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATA-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGACTAATAGT---------- --------------------AACGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42869.1|gb|MF778397 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42869.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42869.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAAAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATA-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42948.1|gb|MF778401 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42948.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42948.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAAAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATA-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGG------GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42372.1|gb|MF778391 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42372.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42372.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACTCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAAT------------- -----------------------GAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42950.1|gb|MF778403 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42950.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42950.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAAAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTATAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGATTAATAAT---------- --------------------AGCGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGG AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42870.1|gb|MF778398 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42870.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42870.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTAGG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCACAACTGTTTAATAGTACTTGGGAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42959.1|gb|MF778409 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42959.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2003] [note=days-post-seroconversion:1048 viral-load:97000 CD4-count:803 CD8-count:865 gene:env] HIV-1 viroverse:42959.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTCAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGGGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAAGACTACTAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCACAACTGTTTAATAGTACTTGG------GGGAAT------GTAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45325.1|gb|MF778418 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45325.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45325.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCARAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACCTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGCAATGTTAGTAAAGCA GACTGGAATGACACTTTGAGACAGATTGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAGAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCATGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAATAAAGAGACTAAT------------- -----------------------GAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45333.1|gb|MF778426 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45333.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45333.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCACGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCT------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------------ACAACGAGGGAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAAGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAAGTAGTAATTAGATCT-GACAATTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAATTTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTY-T ACTGTAATTCATCAAAACTGTTTAATAGCACTTGGAGG---GGGAAT------ACAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAGGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45335.1|gb|MF778428 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45335.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45335.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTGTCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCT------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------------ACAACGAGGGAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATYCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACCTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAATGACACTTTGAAACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAACAGCACAA TAGTCTTTAAACAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTY-T ACTGTAATTCATCAAAACTGTTTAATAGTATTTGGAGG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAAT------------- -----------------------AAGACCATC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45327.1|gb|MF778420 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45327.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45327.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTGTCAACGCTGGTGG------------AGATGGGGA------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCT------------GGGAATAAGACTGACAAT----------------------- -------------------------------------------------------ACAACGAGGGARGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAAYATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAACGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAAAGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45324.1|gb|MF778417 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45324.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45324.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGGGACAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTC------AAAAATAGCACAA TAGTCTTTAAACAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTGATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------ACAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGAGACTAATAGT---------- --------------------------ACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45320.1|gb|MF778413 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45320.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45320.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATAACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACCTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAAACAAGCACACTGTAATGTCAGTCAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------ATAACTGAT------------------ TGGAAT------GGGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT CAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAGGGACTAATAGT---------- --------------------AACGAGACCACC---GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45332.1|gb|MF778425 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45332.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45332.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGCTACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGCAATGTTAGTAAAGCA GACTGGAATGACACTTTGAGACAGATTGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAAACAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCAAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45330.1|gb|MF778423 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45330.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45330.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACGGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAGTGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACACATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTCAATCAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTY-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GAAACTGAT------------------ TAGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAAAGATGGTGGTAATAGTGGAGGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTAGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-AAAAAAAGA >gnl|viroverse|45321.1|gb|MF778414 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45321.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45321.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGTGGGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GAAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAAAGGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45326.1|gb|MF778419 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45326.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45326.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGAGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCACTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GAAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAAAGGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45339.1|gb|MF778432 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45339.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45339.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGAGT------------ATGATGCT CCTTGGAACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAGGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGT TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTY-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCAAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45336.1|gb|MF778429 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45336.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45336.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGARAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAATCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTY-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ATAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAGGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45337.1|gb|MF778430 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45337.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45337.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTY-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCATGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAGGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45328.1|gb|MF778421 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45328.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45328.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAGGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAATTTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGA-TACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ATAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACC---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGCTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCAAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45329.1|gb|MF778422 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45329.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45329.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAAYAATACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAATTTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAA---GGGAAT------GTAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------AAGACTAATAGT---------- --------------------AACAAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45334.1|gb|MF778427 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45334.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45334.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCT------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------------ACAACGAGGGAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAARCATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAACACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GAAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------GAGACTAATAGT---------- --------------------AGCAAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45322.1|gb|MF778415 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45322.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45322.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCT------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------------ACAACAAGGGAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GAAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------AAGACTAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45331.1|gb|MF778424 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45331.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45331.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGATGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCT------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------------ACAACAAGGGAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGGCCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GAAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------AAGACTAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45338.1|gb|MF778431 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45338.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45338.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTGTCAACGCTGGTGG------------AGATGGGGT------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTACCCT------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------------ACAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAGCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTY-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAAAGAGACTAAT------------- -----------------------GAGACCACC---GAGATYTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45323.1|gb|MF778416 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45323.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2004] [note=days-post-seroconversion:1404 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45323.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------ACAACAGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GAAACTAAT------------------ TGGAAT------GGGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATCATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTAGAGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44308.1|gb|MF778443 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44308.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44308.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTATAGT-GCTACAGAGAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACCACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAAAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGAAGAAAGGAGAGATGAAAA CCAAT----------------GCAACAGAGAAA--------GGAGAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------AGAC CAGGAAAAACATTTTATGCAACAGGTAAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTAAGACAGATAGCTATG-AAATTACAA------AAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCGAAACTGTTTAATAGTACTTGGAAG---GGGAAT------AAAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAAGAAATAATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAAGAGGAGATATGAGGGACAATTGGAGA AGTAAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-AAAAAAAGA >gnl|viroverse|44312.1|gb|MF778447 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44312.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44312.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAAGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGGCAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTGATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAT------------------ TGGAAT------GAGACTGTAGAG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------AAGACTAATAGT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44298.1|gb|MF778434 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44298.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44298.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAGAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGAAGAAAGGAGAGATGAAAA CCAAT----------------ACAACGGAGAAA--------GGAGAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACGTGGAGG---GGAAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------AAGACTAATAGT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44299.1|gb|MF778435 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44299.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44299.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAGAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGAAGAAAGGAGAGATGAAAA CCAAT----------------ACAACGGAGAAA--------GGAGAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACGTGGAGG---GGAAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------AAGACTAATAGT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44310.1|gb|MF778445 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44310.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44310.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAGAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCGAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGA---------AAGACTAATAGT---------- --------------------AGCAATACCACC---GAGGTCTTCCGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44301.1|gb|MF778437 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44301.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44301.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAGGAGGGATGAAAA CCAAT----------------GCAACAGAGAAA--------GGAGAGATG-AAAAACTGCTCTTTCCAGGTGACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAAAAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAAYACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGGCAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATAAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTGATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGACCTTCAGACCAGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44303.1|gb|MF778439 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44303.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44303.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAAGAGAGATGAAAA CCAAT----------------ACAACGGAGAAA--------GGAGAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAGTGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGGCAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATAAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAAT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44307.1|gb|MF778442 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44307.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44307.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAGAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCCAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCTAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGAAGAAAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACACAGGAAGAATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAGT------------------ TGGAAT------GAGTCTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCT CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGATGTTCAACAAATATCACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44699.1|gb|MF778457 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44699.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44699.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCGGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAAGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGAGAATACTAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGT TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAGGGAATAAGAGT---------- --------------------AACGAGACCATC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44311.1|gb|MF778446 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44311.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44311.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAGAAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGGATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAACA GAATGGAAGGACACCTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44315.1|gb|MF778449 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44315.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44315.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGAAGAAAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGGATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44300.1|gb|MF778436 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44300.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44300.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGGATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44319.1|gb|MF778453 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44319.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44319.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGGATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACAACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44297.1|gb|MF778433 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44297.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44297.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAARACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------AAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44321.1|gb|MF778455 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44321.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44321.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTARTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------ACAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAACAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44320.1|gb|MF778454 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44320.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44320.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGTTGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAAAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44313.1|gb|MF778448 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44313.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44313.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGTCAAT----------------------- -------------------------------------------------ACCAATACAACGAAGAAAGGAGAGATGAAAA CCAAT----------------ACAACGGAGAAA--------GGAGAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATCTGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGCTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44316.1|gb|MF778450 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44316.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44316.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAGAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACG------------------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------ACAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44697.1|gb|MF778456 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44697.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44697.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACG------------------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGT TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAATCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44318.1|gb|MF778452 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44318.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44318.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAGAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGAGGGAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACACAGGAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGATTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTGAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAAGGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAAACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44317.1|gb|MF778451 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44317.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44317.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGAGGGAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGTGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44309.1|gb|MF778444 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44309.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44309.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------GCAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGTGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCGAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACC---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCAGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44306.1|gb|MF778441 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44306.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44306.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------GCAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTACTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGCTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGCATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44302.1|gb|MF778438 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44302.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44302.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTAT------------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------GCAACGGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAATCA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCATAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44305.1|gb|MF778440 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44305.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2005] [note=days-post-seroconversion:1761 viral-load:16000 CD4-count:931 CD8-count:1005 gene:env] HIV-1 viroverse:44305.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTGCCAATGCAACAGAGACAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCGGAAAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGT TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT------GAGACTGTAAGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAAACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45242.1|gb|MF778476 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45242.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45242.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTACTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGAGTAAT------------------------------ACTGCCAATGCAACAGAGAAAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GAGAAT------GTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45224.1|gb|MF778466 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45224.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45224.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAATGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGTCTTGGGAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTACCAAT----------------------- -------------------------------------------------------ACAACAGAGAAAGGA---------- --------------------------------------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGT TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGTCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------GAAACTACT------------------ TGGAATGAGACTTGAGACTGTAGGGTCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AAC---GCCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAAAGA-GAAAAAAGA >gnl|viroverse|45245.1|gb|MF778478 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45245.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45245.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGCTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------------GCAACAAAGAAAGTAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCRGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAC TAGCCTTTAAACAATCCTCA---GGAGGGGACCCAGAAACTGTGATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCT CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAAACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATAGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45202.1|gb|MF778458 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45202.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45202.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAAATGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCRCTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCACTACAAAGGAGAAAGGAGAGATGAGAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCGGAAAGAATATGCA-ATTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAGACAGATAGCTGTG-AAATTACAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAC------GTAACTAAT------------------ GGGAAT------GACACTGTAGGG-TCAAATGACACC---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45236.1|gb|MF778473 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45236.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45236.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGTCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAA----------------------- -------------------------------------------------GCCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATGTGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAAT ACAGCTGAAAAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGGATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAGTGAAACA GAATGGAAGGACACTCTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAGG------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGCGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|45219.1|gb|MF778462 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45219.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45219.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATGTTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCACTACAAAGGAGAAAGGAGAGATGAGAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATCAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAGA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATAAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAGAG-TCAAATGAGACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGACCTTCAGACCAGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45232.1|gb|MF778469 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45232.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45232.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTACCAAT----------------------- -------------------------------------------------------GCAACGGGGAAAAGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGAAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ GGGAAT------GAGACTGTAGAG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGACCTTCAGACCAGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45233.1|gb|MF778470 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45233.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45233.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGGAAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAATAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAGGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAAACAGATAGCTAGG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAGT------GTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45217.1|gb|MF778461 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45217.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45217.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCACTACAAAGGAGAAAGGAGAGATGAGAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GAAACTACT------------------ TGGAAT------GGGACTGTAGAG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45230.1|gb|MF778468 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45230.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45230.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTACCAAT----------------------- -------------------------------------------------ACCACTACAAAGGAGAAAGGAGAGATGAGAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAGT------------------ GGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAGAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45235.1|gb|MF778472 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45235.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45235.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCACTACAAAGGAGAAAGGAGAGATGAGAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAACTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTCAT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45220.1|gb|MF778463 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45220.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45220.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACGAGAAGTAGTCTTGGAAAATGTGACAGAATACTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ATTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCACATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGATAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTGATTCATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GAAACTAAT------------------ TGGAAT------GAGACTGTAGAG-TCAAATGACACT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45237.1|gb|MF778474 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45237.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45237.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGGAAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGT TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCTAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAAGGACACTTTGAGACAGATAGCTATG-AAATTACAA------AAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAACTCATCAAAACTGTTTAATAGTACTTGGAGG---AGGGAT------GCAACTGAT------------------ TGGAAT---------------GAG-ACAGATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATAGT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45225.1|gb|MF778467 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45225.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45225.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGAATGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACAGTTAATAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAACTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAC------------------ TGGAAT---------------GAG-ACAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45204.1|gb|MF778459 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45204.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45204.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGGGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------GCCACTACAACGGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCACATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTATCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGCAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAACTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT---------------GAG-ACAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCAGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45234.1|gb|MF778471 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45234.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45234.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCACTACAAAGGAGAAAGGAGAGATGAGAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGATTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGGCAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATAAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT---------------GAG-ACAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45244.1|gb|MF778477 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45244.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45244.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCACTACAAAGGAGAAAGGAGAGATGAGAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAACCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT---------------GAG-ACAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45221.1|gb|MF778464 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45221.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45221.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGATGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACAGGGAGAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAATAGC---------TATAGATTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT---------------GAG-ACAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45222.1|gb|MF778465 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45222.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45222.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCACTACAACGGAGACAAGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGAATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAACCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT---------------GAG-ACAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45239.1|gb|MF778475 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45239.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45239.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTTTGTTTTGTGCATCAGACGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGACAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAACCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT---------------GAG-ACAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45205.1|gb|MF778460 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45205.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2006] [note=days-post-seroconversion:2132 viral-load:8100 CD4-count:599 CD8-count:699 gene:env] HIV-1 viroverse:45205.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAG GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAACAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ATTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCACATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTAATGTTAATAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTGATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT---------------GAG-ACAGATGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGATGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGCAATAGTGGAAAGAATAATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT ACAGAGA-GAAAAAAGA >gnl|viroverse|45468.1|gb|MF778479 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45468.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45468.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAATGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAG GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGACAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACACATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAATACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAACTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAT------------------ TGGAAT---------------GAG-ACAGATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATAGT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45476.1|gb|MF778482 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45476.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45476.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTAACTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACGGTAGCAACA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAAT------GTAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45477.1|gb|MF778483 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45477.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45477.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCCTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGACTAAT------------------------------ACTGACAATGCAGCAGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAATAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAGGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGTAGCAAAA TAGTCTTTAATCATTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------GTAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGC-CCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATATT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45478.1|gb|MF778484 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45478.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45478.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCAGGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACACAGACAGAATATGCA-ATTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGTAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAATTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATAGT---------- --------------------AGCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45480.1|gb|MF778486 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45480.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45480.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGGGAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCGATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTATTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TAT------AACAGTAGCAAAA TAACCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATAGT---------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45481.1|gb|MF778487 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45481.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45481.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTATATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAGAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TAT------AACAGTAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45487.1|gb|MF778491 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45487.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45487.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCCTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGACTAAT------------------------------ACTGACAATGCAGCAGAGACAGAAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAATAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAGGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGTAGCAAAA TAGTCTTTAATCATTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------GTAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATATT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45489.1|gb|MF778493 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45489.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45489.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTCAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGAGTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAT------------------ TGGAAT---------------GAG-ATAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45493.1|gb|MF778495 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45493.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45493.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCCTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGACTAAT------------------------------ACTGACAATGCAGCAGAGACAGAAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAATAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAGGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGTAGCAAAA TAGTCTTTAATCATTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------GTAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATATT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45514.1|gb|MF778496 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45514.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45514.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGACTAAT------------------------------ACTGCCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAAATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAATCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATAGT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45515.1|gb|MF778497 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45515.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45515.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGGAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAATCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATAGT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45517.1|gb|MF778499 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45517.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45517.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACAGAGACTAAT------------------------------ACTGACAATGCAGCAGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAATATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAATAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAGGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGTAGCAAAA TAGTCTTTAATCATTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---GGGAAT------GTAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAAC---------ACTAATATT---------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATACAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45470.1|gb|MF778480 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45470.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45470.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGC-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGACAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAACATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGGACTGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45471.1|gb|MF778481 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45471.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45471.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGGGAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGGACTGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGCTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45479.1|gb|MF778485 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45479.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45479.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGGCAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCC-AAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGGACTGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGCTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45482.1|gb|MF778488 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45482.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45482.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGCCCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGGCAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGGACTGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGCTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45484.1|gb|MF778489 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45484.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45484.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGYT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CAATGGAAAAGGAACATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAATTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAATGTTAATGAAACA GAATGGAAAGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGGACTGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAACTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45486.1|gb|MF778490 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45486.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45486.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGGCAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTNC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGGACTGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGCTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45488.1|gb|MF778492 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45488.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45488.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGGCAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTMTCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGGACTGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGCTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45490.1|gb|MF778494 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45490.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45490.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCACTACAACGGGGAAAGGAGAGATGAACA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTTTCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAGGGTATACATATC------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAAACAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGK-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGAGG---GGGAAT------GCAACTGAT------------------ TGGAAT------GAGACTGTAGGG-TCAGATGACAAT---------------------------------ATCACGCTCT CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGAAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGGGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45516.1|gb|MF778498 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45516.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2007] [note=days-post-seroconversion:2496 viral-load:3400 CD4-count:1165 CD8-count:1327 gene:env] HIV-1 viroverse:45516.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGGCAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGGACTGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGCTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43966.1|gb|MF778503 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43966.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43966.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTTTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAGTTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCATACTGTAATGTTAGTGAAACA GAATGGAAGAACACTCTGGAACAGATAGCTGTG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAA---AGGAATGGAACTAAGTGGAATACTAGT------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGGGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43975.1|gb|MF778512 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43975.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43975.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAACATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAACAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACCCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAAGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTACG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGGAA---ACGAATGGAACTAGTTGGAATACTAGT------------ TGGAAG------GGGACTATAGGG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43968.1|gb|MF778505 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43968.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43968.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAAYCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACAGAGACTAAT------------------------------ACTGACAATGCAGCAGAGGAAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACAAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAGCTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTAAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---GGGAACGGGACTGTAACTAGT------------------ TGGAAT------GAGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43967.1|gb|MF778504 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43967.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43967.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAATACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GAAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGACTATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAGGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TAT------AACGGTAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43980.1|gb|MF778517 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43980.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43980.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTTCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAGAACA GAATGGAATAACACTTTGAGGCAGATAGCTATA-AAATTACAA------AAACAA---TAT------AACAGTAGCAAAA TAACCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAT------------------ TGGAAT---------------GAG-ACAAGTGACAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43979.1|gb|MF778516 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43979.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43979.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAC----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCGACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTRATAGAGCA GAATGGAATAACACTTTGAGGCAGATAGCTATG-AAATTACAA------GAACAA---TAT------AACAGTAGTAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43972.1|gb|MF778509 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43972.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43972.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGACTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAC----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAGAGCA GAATGGAATAACACTTTGAGGCAGATAGCTATG-AAATTACAA------GAACAA---TAT------AACAGTAGTAAAA TAACCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43971.1|gb|MF778508 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43971.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43971.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAACTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGACTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAC----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAGAGCA GAATGGAATAACACTTTGAGGCAGATAGCTATG-AAATTACAA------GAACAA---TAT------AACAGTAGTAAAA TAACCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43977.1|gb|MF778514 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43977.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43977.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ACCATGAAGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTTCCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTACAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAATAAAGTTGTAAAAATTAATTGTACAAGACCCAACAACAATACAAGAAAAAGTATACACATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAGGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAG------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATACTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43965.1|gb|MF778502 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43965.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43965.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGT---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTAACA------GAACAA---TTT------AAAAGTAGCAAAA TAATCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTATTTAATAGTACTTGGGAG---AGGAAT------ACAACTGAG------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43969.1|gb|MF778506 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43969.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43969.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTATGGAAAGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAACATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TATTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAATACTTTGAGACAGATAGCTATG-AAATTACAA------AAACAA---TTT------AACAGTAGCAAAA TAATCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGAT GCAGAGA-GAAAAAAGA >gnl|viroverse|43976.1|gb|MF778513 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43976.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43976.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAAGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACAGAGACTAAT------------------------------ACTGACAATGCAGCAGAGGAAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACAAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGCATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43964.1|gb|MF778501 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43964.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43964.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGGGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAACGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAGTTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAGGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAAACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43973.1|gb|MF778510 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43973.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43973.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACG-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAGTGTAATGATAAAAACTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAATAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43974.1|gb|MF778511 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43974.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43974.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGATAGAACATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACGTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43970.1|gb|MF778507 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43970.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43970.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AGTAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAACAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGG >gnl|viroverse|43978.1|gb|MF778515 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43978.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43978.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAAGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43981.1|gb|MF778518 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43981.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43981.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGCACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAAGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43982.1|gb|MF778519 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43982.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43982.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATGACACTTTGAGACAGATAGCTATA-AAATTAACA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43963.1|gb|MF778500 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43963.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2008] [note=days-post-seroconversion:2867 viral-load:6601 CD4-count:580 CD8-count:660 gene:env] HIV-1 viroverse:43963.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCCAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAAAATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAAAACA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGACACTAAT------------- -----------------------GAGACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44698.1|gb|MF778542 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44698.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:44698.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAACAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGYCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTAAT------------------ TGGAAT---------------GAG-ACAAGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGGCAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAACATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATATT------------------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42408.1|gb|MF778526 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42408.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42408.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTCTCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGAAAAATGTGACAGAATATTTCAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAGTTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACACATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAGAGCA GAATGGAATAACACTTTGAGACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAACGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42405.1|gb|MF778523 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42405.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42405.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAATCACTACTCTGTTTTGTGCATCGGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACAAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAACAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAAAAGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAA-ATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTATTAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42410.1|gb|MF778528 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42410.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42410.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTTTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCGTCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----GATAATGATAATAGTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAACAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATAGAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AATAAAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGGAATGATAGT---------- --------------------AACGAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42665.1|gb|MF778541 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42665.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42665.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTTTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATCATTGTGCCCCGGCTGGGTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAAGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACACATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAGAGCA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42402.1|gb|MF778520 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42402.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42402.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTTTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGTGGCGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAAACAGATAGCTATG-AAATTACAA------GAACAA---TAT------AACAATAGCAGAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAACTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42661.1|gb|MF778537 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42661.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42661.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGTGGCGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAACGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTRGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------GAACAA---TAT------AACGGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACGGGGCTGATATTGACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42413.1|gb|MF778531 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42413.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42413.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGTGGCGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACT-------------------TTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------GAACAA---TAT------AACGGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42417.1|gb|MF778534 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42417.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42417.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAAATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGTGGCGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------GAACAA---TAT------AACGGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42416.1|gb|MF778533 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42416.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42416.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATATAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGTGGCGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAATAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATTGGAGACATAAGAAGAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGTTATA-AAATTAACA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATACTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42403.1|gb|MF778521 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42403.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42403.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAAT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATGATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACCCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATTGGAGACATAAGAAGAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGTTATA-AAATTAACA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATACTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42664.1|gb|MF778540 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42664.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42664.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAATGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATGATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACCCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATTGGAGACATAAGAAGAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGTTATA-AAATTAACA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATACTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GAGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42412.1|gb|MF778530 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42412.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42412.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATGATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGTTTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42662.1|gb|MF778538 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42662.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42662.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTCTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAACGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAT TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGTTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAAGAGAGCA GAATGGAATAACACTTTGAGACAGATAGTTATG-AAATTACAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42663.1|gb|MF778539 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42663.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42663.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAGTAAT------------------------------ACTGTCAATACAACGGAGGGAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GCTAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGTTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGGC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAAGAGAGCA GAATGGAATAACACTTTGAGACAGATAGTTATG-AAATTACAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAG------------------ TGGAAT---------------GAG-ACAGGTGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42406.1|gb|MF778524 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42406.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42406.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAGTAAT------------------------------ACTGTTAATACAACGGAGGGAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACACATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAGAGCA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTAAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42418.1|gb|MF778535 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42418.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42418.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATRCAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGAAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATATTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACACATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAGAGCA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42407.1|gb|MF778525 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42407.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42407.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATCTAATAGCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGT-TTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGAGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- ------------------------GGGCCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42409.1|gb|MF778527 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42409.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42409.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATACTACGGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGTTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAGAGCA GAATGGAATAACACTTTGAGACAGATAGTTATG-AAATTACAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGACTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42660.1|gb|MF778536 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42660.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42660.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATCTAATAGCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAAGATAATAGT ACAGCTGAACAAAGTTGTAAAAATCAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAAGAGAGCA GAATGGAATAACACTTTGAGACAGATAGTTATG-AAATTACAA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42411.1|gb|MF778529 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42411.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42411.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATACAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTTTATAACCTTGATCTAATAGCAATA------------------ ----GAAAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGTTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTACTGTTAATAGAGCA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAAACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42404.1|gb|MF778522 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42404.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42404.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGAAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAAATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAAGGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATCTGCT-CTTTTTTATAACCTTGATATAATATCGATA------------------ ----GATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCTTTTGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAATATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------ATAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAAAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42415.1|gb|MF778532 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42415.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2009] [note=days-post-seroconversion:3237 viral-load:3556 CD4-count:763 CD8-count:824 gene:env] HIV-1 viroverse:42415.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGACTAAA------------------------------ACTGTCAATGCAAAGGAGGAAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----GATAATGATAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGT TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACGAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------ATAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45138.1|gb|MF778548 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45138.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45138.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGAAAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTGACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------AGCAATACCACA---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTAGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45147.1|gb|MF778553 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45147.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45147.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTRTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGAAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGAAAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------GTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACAAT---------GACACT------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAACATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------AGCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45159.1|gb|MF778561 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45159.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45159.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTCAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTAATTATTAT---------------GGGAATAGTACTGCCAATGCAACA---------GTTGCCAA TGCAACAGAGGCTAAT------------------------------ACTACCAAGGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAATAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGGAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GATCAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AATGGG---ACYGTAACTAGT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACAAT---------GACACT------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAACATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------ACCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45105.1|gb|MF778543 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45105.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45105.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGTTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCCTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAATGCCACA---------GTTGCCAA TGCAACAGAGGCTAAT------------------------------ACTACCAAGGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAGAGTA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45150.1|gb|MF778556 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45150.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45150.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTACGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAGTATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGGCAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCGGGTTCCCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATAAGGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAGTTT CAATGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGGAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAGG---AGGAATGAGACTGTAACTACT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGAAATAAT------------- --------------------AGTAACGTCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAAA-GAAAAAAGA >gnl|viroverse|45134.1|gb|MF778544 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45134.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45134.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACGCATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGAAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTACCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATAAAAA CCAAT----------------ACAACG-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACRTATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAACATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------AGCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45160.1|gb|MF778562 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45160.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45160.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACGTTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GGGATG-AAA-ACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACAAAGATAGAATATGCT-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATGGCA------GCAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACC-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGCCTAGCAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACTCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAAACAGATAGTTATG-AAATTACAA------GAACAA---TAT------AACGGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCGAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45146.1|gb|MF778552 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45146.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45146.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGTTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTTTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTACCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATAAAAA CCAAT----------------ACAACG-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAACATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45161.1|gb|MF778563 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45161.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45161.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACAAAGATAGAATATGCT-CTTTTTTATAACCTTGATATARTATCAATA------------------ ----AATAATAGTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGCCTAGCAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACTCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAACAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45139.1|gb|MF778549 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45139.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45139.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTCAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTCGATATAATATCAATA------------------ ----AACAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGCCTAGTAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACTCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45135.1|gb|MF778545 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45135.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45135.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACGTTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACCCATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGCCTAGCAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACTCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGATCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45136.1|gb|MF778546 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45136.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45136.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGTTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACGTTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTTTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAAGACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGAGACAGGAGGGATGAAAA CCAAT----------------ACAACG-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGCCTAGCAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACTCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTGATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45137.1|gb|MF778547 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45137.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45137.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAGCGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGAAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATGATAGTAGC---------TATAGGTTAGTAAGTTGTAATACCTCAGTCACT-ACACAGGCCTGCCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATTAGATCT-GACAACTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTAAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAACGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAACACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------GTAACTAGT------------------ TGGAAT------GGGACTACAGAG-TCAAATGACACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCACCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGACTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45154.1|gb|MF778560 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45154.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45154.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAGCGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGACTAAC------------------------------ACTGTCAGTGCAAAGGAGGAAGGAGAGATAAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATGATAGTAGC---------TATAGGTTAGTAAGTTGTAATACCTCAGTCACT-ACACAGGCCTGCCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAGAATGGAACT------ATAACTAGT------------------ TGGAAT------GGGACTATAGAG-TCAAATGACACC---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAGGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45152.1|gb|MF778558 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45152.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45152.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAAATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAACTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCCTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATATT------------------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCTACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45140.1|gb|MF778550 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45140.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45140.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGTTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ATTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAAGGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATATT------------------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45162.1|gb|MF778564 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45162.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45162.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGTTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ATTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAAGGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATATT------------------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45149.1|gb|MF778555 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45149.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45149.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAGTTATCAACGTTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CAAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAA-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATATT------------------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45151.1|gb|MF778557 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45151.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45151.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGAAAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAA-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATATT------------------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45148.1|gb|MF778554 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45148.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45148.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATACAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACYTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTAAAA------GAACAA---TTT------AACAGTAGCAAAA TAATCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45153.1|gb|MF778559 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45153.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45153.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAGCGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATGATAGTAGC---------TATAGGTTAGTAAGTTGTAATACCTCAGTCACT-ACACAGGCCTGCCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAACATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAACTGTACAAGACTCAATAACAATACAAGAAAAGGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAGACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTAAT------------------ TGGAAT---------------GAG-GCAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45145.1|gb|MF778551 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45145.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2010] [note=days-post-seroconversion:3601 viral-load:7592 CD4-count:688 CD8-count:931 gene:env] HIV-1 viroverse:45145.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TGGAACAAATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAG----------------------- -GCAACAGAGAGTACT------------------------------ACTGTCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT TACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCMACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGTTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAGTAAAGCA GAATGGAATGACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-TCAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45436.1|gb|MF778578 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45436.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45436.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAACGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAG----------------------- -GCAACAGAGAGTACT------------------------------ACTGTCAAGACAACGGAGGGAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAGAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATTCTAGTAGTAAC---------TATAGGTTAATAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTTGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTCATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGCCTAGCAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCTCGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGCAATATTAATGAAACA GAATGGAAGGAAACTTTAAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAGCCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45441.1|gb|MF778583 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45441.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45441.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTGATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCCTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -GCACCAGAGAATAAT------------------------------ACTACCAATACAGCGGAGGAAGGAGAAATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAGTTCTACTAGTAGC---------TATAGGTTAATAAGTTGTAACACCTCAATCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT TACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAACATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACGGTTAATAAAACA GAATGGAATGACACTTTGAGACAGATAGTTATA-AAATTAACA------GAACAA---TAT------AACAGTAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGTGGGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAC---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATGAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAACATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------ACCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45425.1|gb|MF778567 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45425.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45425.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAGCGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGG-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGACTAGC------------------------------ACTGTCAATGCAAAGGAGGAAGGAGAGATAAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATGATAGTAGC---------TATAGGTTAGTAAGTTGTAATACCTCAGTCACT-ACACAGGCCTGCCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGATAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACTAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCAATCCTCA---GGAGGGGACCCAGAAACTGTAACGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAACACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------ATAACTAGT------------------ TGGAAT------GGGACTATAGAG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45435.1|gb|MF778577 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45435.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45435.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAGCGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGYGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGATGAGGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATGATAGTAGC---------TATAGGTTAGTAAGTTGTAATACCTCTGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGTTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAGGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAACA GAATGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAACAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAC---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAACATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATARCAAT------------- --------------------AGCAATACCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45438.1|gb|MF778580 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45438.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45438.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAGCGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCRTAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAGCCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGACTAGC------------------------------ACTGTCAGTGCAAAGGAGGAAGGAGAGATAAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACCACAGA TGTAAGAGATAAGACGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATGATGATAGTAGC---------TATAGGTTAGTAAGTTGTAATACCTCAGTCACT-ACACAGGCCTGCCCA AAGGTATCTTTTGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGAAAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACTAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAACGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAWCACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------ATAACTAGT------------------ TGGAAT------GGGACTATAGAG-TCAAATGGCACT---------------------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45429.1|gb|MF778571 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45429.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45429.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCCACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAAG------AGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATA-AAATTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACAAT---------GACACT------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------ACCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45433.1|gb|MF778575 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45433.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45433.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCCTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -GCACCAGAGAATAAT------------------------------ACTACCAATGCAGCGGAGGAAGGAGAAATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCACTTTTTTTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAAAGCA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAGAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT------GGGACTATAGGG-TCAAATGACAAT---------GACACT------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAACATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------ACCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAGCCATTA---GGAGTAGCACCCACCATGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45427.1|gb|MF778569 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45427.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45427.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCCACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT------------------AAGAGTACTGCCAATGCAACA---------GTTGCCAA TGCAACAGTGGCTACT------------------------------ACTACCAAGGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCAGGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTTTATAACCTTGATATAATAGCAATA------------------ ----AATAATTCTAAGGGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGTTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAGGAGCATTTTATGCAACAGGAGACATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAACA GAATGGAATAACACTTTGAAACAGATAGTAATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACGGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAG---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGACTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45442.1|gb|MF778584 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45442.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45442.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAGCGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCCTATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAATGCAACA---------GTTGCCAA TGCAACAGTGGCTACT------------------------------ACTACCAAGGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATATTATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTTACAAACAATGCCAAAAATATAATAGT ACAGCTGAATAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAAAA GAATGGAATGACACTTTGAGACAGATAGTCATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAT---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAAATTGTAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAACATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------AGCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAGCCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45445.1|gb|MF778587 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45445.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45445.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAAAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATACGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGATCAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGAAATAGTACTGCCAATGCAACA---------GTTGCCAA TGCAACAGTGGCTACT------------------------------ACTACCAAGGCAGCGGAGGAAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATACTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATAATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCTCAAACAATGCCAAAAACATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGAGAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AACAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATATT------------------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45439.1|gb|MF778581 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45439.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45439.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGATCAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAATGCAACA---------GTTGCCAA TGCAACAGTGGCTACT------------------------------ACTACCAAGGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------GTAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAAGTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCTCAAACAATGCCAAAAACATAATAGT ACAGCTGAGCAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAAAA GAATGGAATGACACTTTGAGACAGATAGTCATA-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAAATGATAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GACACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45428.1|gb|MF778570 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45428.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45428.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCCACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATARTGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTAGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TGGAACAAATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAATGCAACA---------GTTGCCAA TGCAACAGAGACTAAG------------------------------GCTGCCAAGACAGCAGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCATGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGAGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCTAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GATCAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------GTAACTAGT------------------ GGGAAT------GGGACTATAGGG-TCAAATGACAAT---------GACACT------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACAAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45444.1|gb|MF778586 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45444.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45444.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGAAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGATCAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAATGCAACA---------GTTGCCAA TGCAACAGAGACTAAG------------------------------GCTGCCAAGACAGCAGAGGAAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGAATG-AAAAACTGCTCTTTCCATGTTACTACAGA CGTAAGAGATAAGACGCAGACAACATATGCA-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCTCGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGGAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAGACATAAGACAAGCACACTGTAAGGTTAATGAAACA GAATGGAAGGAAACTTTGAAACAGATAGCTATG-AAATTAGAA------GATCAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------GTAACTAGT------------------ GGGAAT------GGGACTATAGGG-TCAAATGACAAT---------GACACT------------------ATCATACTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACAAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCACAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45432.1|gb|MF778574 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45432.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45432.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGAATTATCAATGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAACCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGGCAGGAGAGATAAAAA CCAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCGGGTTCCCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATGATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCCTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACAATGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAGCAGATAGCTATG-AAATTAGAA------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAGAATGGGACT------GTAACTAGT------------------ TGGAAT------GGGACTATAGAG-TCAAATGACACC---------------------------------ATCATACTTC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAA------------- -----------------------GGGACCACC---GAGATCTTTAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45437.1|gb|MF778579 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45437.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45437.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAATGCTGGTGG------------AGATGGGGC------------ATGATGCT CCTTGGGACATTAATGACTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGGAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATCAT---------------GGGAATATTACTGCCAAT----------------------- -------------------------------------------------ACCAATACAACGGGGGCAGGAGAGATAAAAA CTAAT----------------ACAACG-----------------GAGATG-AAAAACTGCTCTTTCCGGGTTCCCACAGA CGTAAGAGATAAGACGCAGACAGCATATGCA-CTTTTTTATAACCTTGATATAGTATCAATA------------------ ----AATAATGATGATGATAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCACT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGATAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACGGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTTTAGCAGAAGATGAGGTAGTAATTAGATCT-GACAACTTCACGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAAAACATTTTATGCAACAGGAGAAATA------ATAGGAAACATAAGACAAGCACACTGTAATGTTAATGGAACA GAATGGAAGGACACTTTGAAACAGATAGCTATG-AAATTAGAG------GAACAA---TTT------AAAAATAGCACAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAATTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATACATCAAAACTGTTTAATAGTACTTGGAAG---AGGAATGGAACTGTAACTCCT------------------ TGGAAT------GAGACTGTAGGG-TCAAATGACACT---------------------------------ATCACGCTCC AATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGTAATAGTGGAAGAAATAAT------------- --------------------AGTAACGCCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45443.1|gb|MF778585 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45443.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45443.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGACAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATACTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAGTGTAATGAGGAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAGACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACTGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTAATATTAACAAGAGATGGTGGAAACAATAATATT------------------- --------------------AGCAATGCCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45434.1|gb|MF778576 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45434.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45434.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACGTTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAC--- -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- ------AAATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATACTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGAT-------------------------------------- -------------------------------------CCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACTGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTAATATTAACAAGAGATGGTGGAAACAATAATATT------------------- --------------------AGCAATGCCACC---GRGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45446.1|gb|MF778588 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45446.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45446.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCAGCGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TGGAACAAATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATACTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACAGACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACTGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTAATATTAACAAGAGATGGTGGAAACAATAATATT------------------- --------------------AGCAATGCCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45431.1|gb|MF778573 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45431.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45431.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCCACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TGGAACAAATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATACTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACAGACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACTGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTAATATTAACAAGAGATGGTGGAAACAATAATATT------------------- --------------------AGCAATGCCACC---GAGRTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45440.1|gb|MF778582 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45440.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45440.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAGGAATTATCCACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TGGAACAAATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATACTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAACTTCACAGACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACTGATAGCTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTA---TTAACAAGAGATGGTGGAAACAATAATATT------------------- --------------------AGCAATGCCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45424.1|gb|MF778566 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45424.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45424.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCCACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TGGAACAGATGCATGAGGATATAATTAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATACTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAACGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAGAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAGAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTATTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTAATATTAACAAGAGATGGTGGAAACAATAATATT------------------- --------------------AGCAATGCCACC---GAGGTCYTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45426.1|gb|MF778568 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45426.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45426.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATTTGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGCCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATAACATGG TAGAACAGATGCATGAGGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATACTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATC-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAATGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTAC TGTTAAATGGCAGTCTAGCAGAAGGTGAGGTAGTAATTAGATCT-GACAATTTCACAAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGCTATG-AAATTACAA------GAACAA---TTT------AACAGAAGCAGAA TAGCCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AAGAAT------GCAACTAAT------------------ TGGAAT---------------GAG-ACAAATGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAATATGTGGCAAGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACTAAT TAGTTGTTCAACAAATATTACAGGGCTAATATTAACAAGAGATGGTGGAAACAATAATATT------------------- --------------------AGCAATGCCACC---GAGGTCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45430.1|gb|MF778572 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45430.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45430.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCAACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATTTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTCAACATGTGGAAAAATGACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAACCATGTGTAAAGTTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATATTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ATAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATATCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTTTAAAGTGTAATGAGAAAAATTT CACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TATTAAATGGCAGCCTAGCAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCACAAACAATGCCAAAAACATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGCA GACTGGAATAACACTTTGAAACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAGGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTGATATTAACAAGAGATGGTGGAAACACTAATAATAGCAAT------------- --------------------AGCAATACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45423.1|gb|MF778565 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45423.1] [isolation-source=plasma from subject F7] [collection-date=Oct-2011] [note=days-post-seroconversion:3960 viral-load: CD4-count: CD8-count: gene:env] HIV-1 viroverse:45423.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGAGGGGG-ATCATGAAGGATTATCCACGCTGGTGG------------AAATGGGGC------------ATGATGCT CCTTGGGACATTAATGATCTGTAGT-GCTACAGAAAAATTGTGGGTTACAGTCTATTATGGGGTACCTGTGTGGAAGGAA GCAATCACTACTCTGTTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTGCATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAGTAGTCTTGGAAAATGTGACAGAATATTTTAACATGTGGAAAAATGACATGG TGGAACAGATGCATGAGGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAAAATTAACCCCACTCTGTGTT ACCTTAAATTGCACTGATTATTAT---------------GGGAATAGTACTGCCAAT----------------------- -GCAACA---------------------------------------GTTGCCAATGCAACAGAGACAGGAGAGATGAAAA CCAAT----------------ACAACA-----------------GGGATG-AAAAACTGCTCTTTCCATGTTACCACAGA CGTAAGAGATAAGATGAAGACAGAATATGCT-CTTTTCTATAACCTTGATATAATAGCAATA------------------ ----AATAATTCTAATAGTAGC---------TATAGGTTAGTAAGTTGTAACACCTCAGTCATT-ACACAGGCCTGTCCA AAGGTATCTTTCGAACCAATTCCTATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTCAAGTGTAATGATAAAAATTT TACTGGAAAAGGAATATGTAATAATGTCAGCACAGTACAGTGTACACATGGAATTAGGCCAGTAGTGTCAACTCAACTGC TGTTAAATGGCAGCCTAGCAGAAGGTGAGGTAGTAATCAGATCT-GACAACTTCTCGAACAATGCCAAAAATATAATAGT ACAGCTGAACAAAGTTGTAAAAATTAATTGTACAAGACCCAATAACAATACAAGAAAAAGTATACATATA------GGAC CAGGAAGAGCATTTTATGCAACAGGAGAAATA------ATAGGAAAAATAAGACAAGCACACTGTACTGTTAATAGAGAA GAATGGAATAACACTTTGAGACAGATAGTTATG-AAATTACAA------AAACAA---TAT------AACAATAGCAAAA TAGTCTTTAATCACTCCTCA---GGAGGGGACCCAGAAACTGTAATGCACAGTTTTAATTGT-GGGGGGGAATTTTTC-T ACTGTAATTCATCAAAACTGTTTAATAGTACTTGGGAG---AGGAATGCA---ACAACTGAT------------------ TGGAAT---------------GAG-ACAGGTGAAAAT---------------------------------ATCACGCTCC CATGCAGAATAAGACAGATTATAAACATGTGGCAGGAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACTAAT TAGCTGTTCAACAAATATTACAGGGCTAATATTAACAAGAGATGGTGGTAAGAGTAACGAGACTAAT------------- -----------------------GGGACCACC---GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAGTAGCACCCACCATGGCAAAAAGGAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44176.1|gb|MF778599 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44176.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44176.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAGTTTTAATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAGACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------GCTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44145.1|gb|MF778590 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44145.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44145.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GACAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATGCACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTAAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACAAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44150.1|gb|MF778593 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44150.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44150.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAWTTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCYATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGAATGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44174.2|gb|MF778597 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44174.2] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44174.2 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTATACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGAATGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GRAAAAAGA >gnl|viroverse|44175.1|gb|MF778598 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44175.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44175.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGYAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGRCGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44178.1|gb|MF778600 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44178.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44178.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATRATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCMACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAG----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44147.1|gb|MF778591 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44147.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44147.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAGATTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44144.1|gb|MF778589 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44144.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44144.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTATAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAGT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44179.1|gb|MF778601 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44179.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44179.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGARTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAAKGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGAGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44182.1|gb|MF778603 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44182.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44182.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGARTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGWAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44171.1|gb|MF778594 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44171.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44171.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44181.1|gb|MF778602 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44181.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44181.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44148.1|gb|MF778592 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44148.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44148.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAA-ATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTA------CTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44173.1|gb|MF778596 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44173.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44173.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAACTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44172.1|gb|MF778595 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44172.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:44172.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG----------TAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47519.1|gb|MF778606 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47519.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:47519.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAGTATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGTTAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACACGTAAAGGTATACATATA------GGAC CAGGCAGGGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGATGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47517.1|gb|MF778605 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47517.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:47517.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAGT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47516.1|gb|MF778604 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47516.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:47516.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAATATTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAACGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAGGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47529.1|gb|MF778608 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47529.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:47529.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATAATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCGAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTAC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGA-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47527.1|gb|MF778607 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47527.1] [isolation-source=plasma from subject F8] [collection-date=Jul-1996] [note=days-post-seroconversion:89 viral-load:5800 CD4-count:795 CD8-count:1526 gene:env] HIV-1 viroverse:47527.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTGGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42970.1|gb|MF778621 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42970.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42970.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGTT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAACTTTTGATATGTGGAAAAATACTATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAACCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGAGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAC TAGTCTTTAAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACTGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGATGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42960.1|gb|MF778614 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42960.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42960.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAGGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA ACACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAGTATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGTTAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAGTGACACTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAAGACGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42972.1|gb|MF778623 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42972.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42972.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAARGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACACAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------ATAA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAGTAACACTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCGCCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42966.1|gb|MF778617 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42966.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42966.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACACGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAGAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGTAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43396.1|gb|MF778630 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43396.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:43396.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTGGAAAATGTGTCAGAATATTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAACTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTGATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACT------------------ACTTGG------------------------ ---AATGACACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42976.1|gb|MF778627 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42976.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42976.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAATTTTGATATTTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCCTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAACCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT---------------AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGTAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42971.1|gb|MF778622 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42971.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42971.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAATTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGGGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAACAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTGAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATACAACACAACTGTTT------ACTTGG---AGTAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAACATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41186.1|gb|MF778610 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41186.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:41186.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGACCAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAC-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ATTTGG------------------------ ---AATGATGCTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42969.1|gb|MF778620 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42969.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42969.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAATTTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGAGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTACA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGGACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT ACAGAGA-GAAAAAAGA >gnl|viroverse|42965.1|gb|MF778616 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42965.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42965.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGRTCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGGACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41640.1|gb|MF778612 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41640.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:41640.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAAA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTGAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGGACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43387.1|gb|MF778629 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43387.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:43387.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAAA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGTTAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTACA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGGACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42974.1|gb|MF778625 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42974.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42974.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTACA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGARGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GAAAGTGAC---------------ACAATTATCACAYTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42955.1|gb|MF778613 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42955.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42955.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCAATAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTACA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42968.1|gb|MF778619 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42968.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42968.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAAATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAAA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTACA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42964.1|gb|MF778615 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42964.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42964.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAATTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAGAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAACAGAACAGGATGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42975.1|gb|MF778626 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42975.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42975.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTGACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------GCTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCGATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42967.1|gb|MF778618 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42967.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42967.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAATTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGGAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41184.1|gb|MF778609 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41184.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:41184.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTAATATGTGGAAAAATAATACGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCAATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTGAAAAAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------GCTTGG------------------------ ---GATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|41636.1|gb|MF778611 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:41636.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:41636.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATACTATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGAGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTGAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------GCTTGG------------------------ ---GATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42973.1|gb|MF778624 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42973.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42973.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---GATAGT------GCTTGG------------------------ ---GATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42977.1|gb|MF778628 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42977.1] [isolation-source=plasma from subject F8] [collection-date=Dec-1996] [note=days-post-seroconversion:255 viral-load:19000 CD4-count:493 CD8-count:1027 gene:env] HIV-1 viroverse:42977.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATAATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCAATAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGTAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAAAAGATAGTTAAA-AAATTAGAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------GCTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43804.1|gb|MF778641 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43804.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43804.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACGGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATACTATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCTCTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCATAAAGAATATGCACTTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAAAGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAGACAATACTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TATTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGC-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT---------------GATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGGGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAGGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43796.1|gb|MF778633 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43796.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43796.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAATTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCGATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----AATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCTTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAAAAATTGATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAACA AATTGGAATGACGCTTTAGAACAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGGAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACTGGGCTGATATTAACAAGAGAT---GGT---GGTAGTGAGCAGAACAGGATGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43808.1|gb|MF778645 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43808.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43808.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATACTATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- -GCT---------------------------ACTGATATTGGGAATGCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTTATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAGGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCTTTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACGCTTTAAAACAGATAGTTAAA-AAATTAGGAGATATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGATCAGAACGGGATGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43806.1|gb|MF778643 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43806.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43806.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATTTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GATACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAAGTGTATAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAACA AAATGGAATGACGCTTTAAAACAGATAGTTAAA-AAATTAAGAGAAATGGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGATCAGAACGGGATGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43801.1|gb|MF778638 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43801.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43801.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GATACT------------------------AAGA GCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCG-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAAGTGTATAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAACA AAATGGAATGACGCTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43810.1|gb|MF778647 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43810.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43810.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCGATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-AACAAT----------- ----GATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAAGTGTATAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAACA AAATGGAATGACGCTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43809.1|gb|MF778646 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43809.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43809.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCATTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GATACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTACAAATTGATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAACA AAATGGAATGACGCTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43798.1|gb|MF778635 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43798.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43798.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGAACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GATACT------------------------AAGA GCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAGCA AAATGGAATGACGCTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACGCAACTGTTTGATAGTATT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAGTGAGCGGAACAGGATGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43812.1|gb|MF778649 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43812.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43812.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GATACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAAAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAGCA AAATGGAATGACGCTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAT---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAAT---------- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43799.1|gb|MF778636 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43799.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43799.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GATACT------------------------AAGA GCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGGAATTATTTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGAA GAATGGAATGACGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43794.1|gb|MF778631 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43794.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43794.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAGCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGATCAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GGTGACAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGGAATTATTTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGAA GAATGGAATGACGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAATGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCTATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTACTGAGCAGAACGGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|43795.1|gb|MF778632 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43795.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43795.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAGCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCGATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----AATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCTTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGGAATTATTTGTACAAGACCCAGTAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGAA GAATGGAATGACGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43814.1|gb|MF778651 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43814.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43814.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAGCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGATCAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----AATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCTTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAAAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGAA GAATGGAATGACGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGGACGAAT---- -----------------------GATACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43797.1|gb|MF778634 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43797.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43797.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATGGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGTCAGAATATTTTAATATGTGGAAAAATAATATGG TGGAACAAATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GTTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATGCACCTGTACAAATTGATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGAA GAATGGAATGACGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGCTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43813.1|gb|MF778650 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43813.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43813.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTACTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGTCAGAATATTTTAATATGTGGAAAAATAATATGG TGGAACAAATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GTTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTACAAATTGATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGAA GAATGGAATGACGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAGTGAGCAGAACAGGATGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43802.1|gb|MF778639 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43802.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43802.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAATTTTGATATTTGGAAAAATAATATGG TGGACCAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCGATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----AATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCTTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAAAAATTGATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGAA GAATGGAATGAAGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAAGACGACGTAT- -----------------------GACACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43803.1|gb|MF778640 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43803.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43803.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCGATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----AATGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCTTGTCCA AAGGTATCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATGCACCTGTACAAATTGATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGAA GAATGGAATGAAGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43807.1|gb|MF778644 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43807.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43807.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGAAAT----------------- ----------------------------------------------GATACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAGGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACGTATA------GGAC CAGGCAGAGCATTTTATACAACAAGA---ATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACGCTTTAAATCAGATAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAGGAGCAGAACAGGACGGAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43800.1|gb|MF778637 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43800.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43800.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGTCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA AAATGGAATGACACTTTAAAACAGATAGTTACA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT---------------AATAGT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAATGAC---------------ACA---ATTACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGATCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43805.1|gb|MF778642 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43805.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43805.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAACACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGAGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAAATTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGTCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGGTGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA AAATGGAATGACACTTTAAAACAGATAGTTACA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAACATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGATCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43811.1|gb|MF778648 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43811.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1997] [note=days-post-seroconversion:438 viral-load:17453 CD4-count:427 CD8-count:1153 gene:env] HIV-1 viroverse:43811.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTAGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAAGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT------------------------------------ATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTTATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGATCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACACCTGTAGAAATTAATTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTAGAGCA AAATGGAATGACACTTTAAAACAGATAGTTGAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAGAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAAT---------------------------TGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAATGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTGATGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47344.1|gb|MF778673 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47344.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:47344.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGAAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAACTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACGCTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGT---------------------ACTTGG------------------------ ---AATGATGCTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGACGAATGAGACC------- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|47343.1|gb|MF778672 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47343.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:47343.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGAACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTGGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGACGAATGAGACC------- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47342.1|gb|MF778671 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47342.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:47342.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAACACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGACGAATGAGACC------- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|47341.1|gb|MF778670 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47341.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:47341.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGG------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GTTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTGGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAAACATTGATTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGGGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---GATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GATAATGAGACGAATGAGAC-------- ----------------------------C------------TTCAGGCCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47340.1|gb|MF778669 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47340.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:47340.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGG------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAACAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGACGAATGAGAC-------- ----------------------------C------------TTCAGGCCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47339.1|gb|MF778668 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47339.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:47339.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGTGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAACTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGAAAT----------------- ----------------------------------------------GCTACTAAGATCACTAATAGTAGCTGGGGAAAGA TCACTAATAGTAGC-TGGGGAACGGTGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GAAAATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCACT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGTACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAATAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATACTAATACACGTAAAGGTATACGTATA------GGAC CAGGCAGAGCATTTTATACAATAGGAAGAATA------GGAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAC TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAGGG-------TCAAAT---------AGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAATGAGA CCTTCAGACCTGGAGGAGGAGATGAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47338.1|gb|MF778667 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47338.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:47338.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGG------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GTTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTGGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAAACATTGATTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGGGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---GATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GATAATGAGACGAATGAGAC-------- ----------------------------C------------TTCAGGCCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|47337.1|gb|MF778666 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:47337.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:47337.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAACACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTGCCCACAGACCCCAACCCACAAGAAATATTATTGGAGAATGTGACAGAACTTTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTGGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGGGCAGAACGGGACGAA----- --------T--------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGTATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43433.1|gb|MF778658 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43433.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43433.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGAACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGGG------AATGCTGATATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTTATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAGGTATACGTATA------GGAC CAGGCAGAGCATTTTATACAACAAGA---ATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACGCTTTAAATCAGACAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAGTTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAAGTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGAACGAAT---- -----------------------GAGAAGAAT---GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44224.1|gb|MF778664 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44224.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:44224.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGAACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAAAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGGG------AATGCTGATATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTTATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAGGTATACGTATA------GGAC CAGGCAGAGCATTTTATACAACAAGA---ATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACGCTTTAAATCAGACAGTTAAA-AAATTAAGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAGTTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAAGTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAAGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAAAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACGGAACGAAT---- -----------------------GAAAAGAAT---GAAACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43432.1|gb|MF778657 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43432.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43432.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGTGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAACTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATACCAATA-GACAAT----------- ----GAAAATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCACT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGTACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATACTAATACACGTAAAGGTATACGTATA------GGAC CAGGCAGAGCATTTTATACAATAGGAAGAATA------GGAGGAGATATAAGACAAGCACATTGTAACATTAGTGGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAC TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAGGG-------TCAAAT---------AGAAGTGAC---------------ACAATTATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAGCAGAACAGGACGAATGAGA CCTTCAGACCTGGAGGAGGAGATGAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43430.1|gb|MF778655 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43430.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43430.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGG------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACCTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAGAAAGTCCTCA---GGAGGGGATCCAGAAATTGCAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43427.1|gb|MF778652 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43427.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43427.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTGGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAAACATTGATTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGGGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAAAT---------GGAAGTGAC---------------ACA---ATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43436.1|gb|MF778661 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43436.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43436.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCGAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AGGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43428.1|gb|MF778653 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43428.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43428.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGTACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATTTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGGAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AAAGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAG---------GCGAAT---- -----------------------GAGACC------------TTCAGGCCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43435.1|gb|MF778660 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43435.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43435.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAACACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAACTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- ----GCTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43431.1|gb|MF778656 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43431.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43431.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAACACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAACTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACT---------------------TGG------------------------ ---AATGATACTGAAGGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAGTGAGCAG------ATGAAT---- -----------------------GAGACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAAGAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43429.1|gb|MF778654 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43429.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43429.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAACACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTG ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACTACG------------------------A TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTGGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAACA AAATGGAATGACGCTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAG---------ACGAAT---- -----------------------GAGACC------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|43437.1|gb|MF778662 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43437.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43437.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAACACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAACTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGGAATA------ATAGGAGATATAAGACAAGCACATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---GATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAG---------ACGAAT---- -----------------------GAGACC------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|43434.1|gb|MF778659 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43434.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43434.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGG------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCYAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGCTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------GAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTGGATGTAATGCCAATA-GACAAT----------- ----GGTGATAAT---ACTAGC---------TATAGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAAAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAG---------ACGAAT---- -----------------------GAGACC------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|44225.1|gb|MF778665 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44225.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:44225.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGCAGCACTTGTGGAGG------------TGGGGC------------ATCTTGCT CCTGGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATGTGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAGTTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACTACG------------------------A TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACAGGAGAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAG---------ACGAAT---- -----------------------GAGACC------GAGACCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAGAAAAGA >gnl|viroverse|43531.1|gb|MF778663 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43531.1] [isolation-source=plasma from subject F8] [collection-date=Jun-1998] [note=days-post-seroconversion:788 viral-load:1100 CD4-count:791 CD8-count:1226 gene:env] HIV-1 viroverse:43531.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAGAATTGGAAGCACTTGTGGAGA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTGATATGTGGAAAAACAATATGG TGGATCAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGGG------AATGCTACTATTGGGAAT----------------- ----------------------------------------------GCTACT------------------------AAGA TCACTAATAGTAGC-TGGGGAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTTTTATAAACTTGATGTAATGCCAATA-GACAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTTATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAGCGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATTTGTACAAGACCCAATAATAATACAAGGAAAGGTATACATATA------GGAC CAGGCAGAGCATTCTATGCAACAGGAGGAATA------ATAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACGCTTTAAAACAGATAGTTAAT-AAATTAGGAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAATTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTGATAGTACTTGG---AATGAT------ACTTGG------------------------ ---AATGATACTGAAAGG-------TCAATT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATAATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACGAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTATTGAGCAGAACGGGACGAAT---- -----------------------GAAACC------------TTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42914.1|gb|MF778689 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42914.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42914.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAGCACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATATGGAAAAATAATATGG TGGATCAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------GTTGGG------AAT-------------------------------- ----------------------------------------------GCTACT------------------------AAGA GCACTAATAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCTATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAG----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGCCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGTACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGCACAAGACCCAATTATAAGAAACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAGATATAAGACAAGCACATTGTAACATTAATAGAGCA AAATGGAATGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAG---------ACGAAG---- -----------------------GGCACC------GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42915.1|gb|MF778690 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42915.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42915.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATACTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAAGTGCACTGAT---------------ATTGAG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTGGGAATGCTACTACTGCTCCT---------------AAGA TCACTAATAGTAGC-TGGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------ACTTGG------------------------ ---AATGATACTGAAGGG-------TCAAAT---------AGAGATGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGCGTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATGAG---------ACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42911.1|gb|MF778686 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42911.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42911.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTACTGTGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATGTCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAATGTCAGCACTGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGG-AAAGCAATGTATGCCCCTCCCATCGAAGGACAAAT TAGATGCGTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42730.1|gb|MF778679 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42730.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42730.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATGGGAATGTTACT------------------------AAGA GCACTAATAGTAGC-TGGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGTACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGCGTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42909.1|gb|MF778684 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42909.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42909.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATGGGAATGTTACT------------------------AAGG GCACTAATAGTAGC-TGGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGTACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGCGTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42913.1|gb|MF778688 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42913.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42913.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- -------------------------------------ACTAGGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAAACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGCATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGCTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AATAGT------AATTGG------------------------ ---AATAATACTGAAGGG-------TCAAAT---------AGGGGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTAATATTAACAAGAGAT---GGT---GGTAATAAGAAGAATGAGACGAAT---- -----------------------GATATC------GAGATCTTTAGACCTGCAGGAGG-GATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42766.1|gb|MF778682 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42766.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42766.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTACTGTGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCTCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAAATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTGCAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTAAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42732.1|gb|MF778680 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42732.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42732.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATATGGAAAAATAATATGG TGGATCAGATGCATGAAGATATAATCAGTTTATGGG--AAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATAAGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATAAAAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTGATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACGCTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAAAGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---GAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GAGACGAAT---- -----------------------AACACC------GAGACCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42728.1|gb|MF778677 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42728.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42728.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATGGGAATGTTACT------------------------AAGA GCACTAATAGTAGC-TGGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAATGCCAATA-GGCAAT----------- -------GATAGT---AATAGT---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGCTAAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAATATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GAGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42910.1|gb|MF778685 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42910.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42910.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATAAGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-TTTTTTTATAAACTTGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGCTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GAGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42912.1|gb|MF778687 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42912.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42912.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTACTAGGAATAATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCARACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGCTAAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GAGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42918.1|gb|MF778693 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42918.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42918.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATGGGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGCCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTAAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------GAGACC------GAGATCTTTAGACCTGCAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42727.1|gb|MF778676 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42727.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42727.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCGGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTAATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- -------------------------------------ACTACTAATGATACT------------------------AAGA GCACTAATAGTAGC-TGGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCTTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGCCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GAGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42725.1|gb|MF778674 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42725.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42725.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- -------------------------------------ACTAGGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTGCAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42733.1|gb|MF778681 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42733.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42733.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- -------------------------------------ACTAGGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTGCAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42726.1|gb|MF778675 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42726.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42726.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- -------------------------------------ACTAGGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTGCAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42916.1|gb|MF778691 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42916.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42916.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- -------------------------------------ACTAGGAATGATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAATGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTGCAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42729.1|gb|MF778678 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42729.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42729.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTACTAGGAATAATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATCAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTACGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTGCAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAGAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42908.1|gb|MF778683 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42908.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42908.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAAGTGCACTGAT---------------ATTGAG------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTACTGGGAAAGCTACTACTGCTCCT---------------AAGA TCACTAATAGTAGC-TGGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATAGGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAG----------- ----GGTGATAAT---ACTAGC---------TATGGGCTGATAAGTTGTAATACCTCAGTTATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGACT---- -----------------------GGCACC------GAGATCTTCAGACCTGGAGGAGGAGATATGAGGGACAATTGGAGA AGTGARTTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|42917.1|gb|MF778692 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:42917.1] [isolation-source=plasma from subject F8] [collection-date=Aug-2001] [note=days-post-seroconversion:1950 viral-load:2700 CD4-count:305 CD8-count:789 gene:env] HIV-1 viroverse:42917.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAAGTGCACTGAT---------------ATTGAG------AATGCTACTATTAGGAATACT-------------- ----------------------------------ACTACTGGGAATGCTACTACTGCTCCT---------------AAGA TCACTAATAGTAGC-TGGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCCAATA-GACAAG----------- ----GGTGATAAT---ACTAGC---------TATGGGCTGATAAGTTGTAATACCTCAGTTATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCAAAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACACAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTGCAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43619.1|gb|MF778711 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43619.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43619.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTAGGAATGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTAATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCAYACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAATATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAAAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AGTAGT------GCTTGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAGTATTACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGCGTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43509.1|gb|MF778705 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43509.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43509.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATCGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTAGGAATGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAGTGCAAATA-GGCAAT----------- -------GATGGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAATCTTTGRAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AGTAGT------GCTTGG------------------------ ---AATAATACTGAAGGG-------TCAAAT---------AGAGATGAC---------------ACAGATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43503.1|gb|MF778699 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43503.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43503.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTAGGAATGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATARACTTGATGTAGTGCAAATA-GGCAAT----------- -------GATGGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAATGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAATCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTT------ACTTGG---AGTAGT------GCTTGG------------------------ ---AATAATACTGAAGGG-------TCAAAT---------AGAGATGAC---------------ACAGATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCCATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43617.1|gb|MF778709 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43617.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43617.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACGGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTAGGAATGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTGGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAAAG-------TCACAT---------GGAAATGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GATACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43500.1|gb|MF778696 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43500.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43500.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTAGGAATGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATGGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAAAG-------TCACAT---------GGAAATGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GATACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCA-AAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43507.1|gb|MF778703 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43507.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43507.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTAGGAGTGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAAAG-------TCACAT---------GGAAATGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GATACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43501.1|gb|MF778697 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43501.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43501.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTAGGAATGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAAAG-------TCACAT---------GGAAATGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GATACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43505.1|gb|MF778701 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43505.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43505.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACGAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTGGGAAGGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAATTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAGTTGTAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAATACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43506.1|gb|MF778702 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43506.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43506.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTGGGAAGGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCRATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAATACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44275.1|gb|MF778713 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44275.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:44275.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTGGGAAGGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAATACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43510.1|gb|MF778706 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43510.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43510.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GTTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTGGGAAGGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAATACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43511.1|gb|MF778707 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43511.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43511.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTGGGAAGGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTAAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTGAAAAGTCTTCA---GGAGGGGATCCAGAAATTGTAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAATACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43504.1|gb|MF778700 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43504.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43504.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTGAGAATGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTCA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGCAAATA-GGCAAT----------- -------GATGGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTACAGTGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGAAACGTAAAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAATA------ACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AGGAATAAAACAA TAGTCTTTCAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAAAG-------TCACAT---------AGAAGTGAC---------------ACAAACATCACACTCC CATGCAGAATAAAACAAATTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGCGTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------AAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43502.1|gb|MF778698 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43502.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43502.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGCTACTATTGGGAATAAT-------------- ----------------------------------ACTACTAGGAATGATACT------------------------ATGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAAAAACGTCAGCACAGTGCAGTGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCTAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44274.1|gb|MF778712 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44274.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:44274.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACTCTATT-----------------------------------------------------------------TTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------GTG---------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTACTGGGAATGATACT------------------------GAGA CCACTAATAGTAGC-GTGGGAATAATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTTTTATAAACTCGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATTA-AACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGACACAAATATCACACTCACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACAAAT---- -----------------------AACACC------GAGATCTTTAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43498.1|gb|MF778694 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43498.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43498.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACTCTATT-----------------------------------------------------------------TTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------GTG---------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTACTGGGAATGATACT------------------------GAGA CCACTAATAGTAGC-GTGGGAATAATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTT-TATAAACTCGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGACACAAATATCACACTCACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACAAAT---- -----------------------AACACC------GAGATCTTTAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43618.1|gb|MF778710 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43618.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43618.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------GTG---------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATGGGAATAATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCTCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGGG-------TCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43508.1|gb|MF778704 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43508.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43508.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------GTG---------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATGGGAATAATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCTCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGGG-------GCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43499.1|gb|MF778695 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43499.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43499.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAAGTGCATTGAT---------------ATTGAG------AATGCTACTATTGAGAATACT-------------- ----------------------------------ACTACTGGGAATACTACTACTGCTCCT---------------AAGA TCACTAATAGTAGC-GTGGGAATAATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-TTTTTTTATAAACTTGATATAATGCCAATA-GACAAG----------- ----GGTGATAAT---ACTAGC---------TATGGGCTGATAAGTTGTAATACCTCAGTTATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAGAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAT------------TGG------------------------ ---AATGATACTGAAGAG-------TCACAT---------GGAAGTGACACAAATATCACACTCACAAACATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43512.1|gb|MF778708 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43512.1] [isolation-source=plasma from subject F8] [collection-date=Feb-2002] [note=days-post-seroconversion:2146 viral-load:6300 CD4-count:340 CD8-count:1021 gene:env] HIV-1 viroverse:43512.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------GTG---------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATGGGAATAATACT------------------------AAGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAATGCAAATA-GGCAAT----------- -------GATAGT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCTCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAGGG-------GCACAT---------GGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTCAGACCTACAGGAGGAGATATGAGGGACAATTRGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44095.1|gb|MF778720 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44095.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44095.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATACT-------------- ----------------------------------ACTAATGGGAATAATACT------------------------GATA CCACTAATAGTAGC-ATGGGAATAATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTTTTATAAACTTGATATAATGCAAATA-GGCAAT----------- -------GATAGT---AACAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATTAAAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAACATTAATGGAACA AAATGGAAGGACACTTTAAAACAGATAGTTGAA-AAATTAGAAGAAATTGAACCA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AATT------------GG------------------------ ---AATGGTACTGAAGAG-------TCACAT---------GGAAGTGACACAAATATCACACTCACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAAT---------GGGACGAAT---- -----------------------AACACC------GAGATCTTTAGACCTACAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44103.1|gb|MF778728 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44103.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44103.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCATGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCTAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAATTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------GTG---------AATGTTACTATTGGGAACAAT-------------- ----------------------------------ACTAATGTGAATAATACT---------------------------A TCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCCCCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAAGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGCACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGTATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTGATAAGTCTTCA---GGAGGGGATCCAGAAATTGAAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------TGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAATAGGA-AAAGCAATGTATGCCCCTCCCATCGAGGGAGAAAT TAGATGTTCATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATAATGGTAATAAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44102.1|gb|MF778727 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44102.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44102.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTGTGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATGTAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTGAATGATAATGATACTATTAGGAAT----------------- -GTGACTACTAACAATGGTACT------ATGAGCAATAATAGTAATGAAACT------------------------ACGA GCACTAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTAATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAGGTAATAATAGT ACAGCTGAATACATCTGTAGAAATTAATTGCACAAGACCCAATTATAAGAAACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTGATAAGTCTTCA---GGAGGGGATCCAGAAATTGAAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------GGG------------------------ ---AATGGTACTGTAGAG-------TCACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATAATGGTAATAAGACGAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44100.1|gb|MF778725 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44100.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44100.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- -------------------ACTAGTAGGAATAATACTACTAGGAATAATAAT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AAGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGAGACTGGAGGG-------TCACAT---------GGAAGT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---- -----------------------AACACC------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT ACAGAGA-GAAAAAAGA >gnl|viroverse|44101.1|gb|MF778726 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44101.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44101.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGAGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATTCTATTGAAAAATGTGTCAGAATATTTTAATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTATT ACTCTAAATTGCACTGAT---------------ATTGTG------AATACTGCTATTGGGAATAAT-------------- -GCTACTGAGAATGAAACTACGAGCGCTAATAATGCTACTGAGAATGAAACT------------------------ACGA GCGCTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTCTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44107.1|gb|MF778732 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44107.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44107.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGATAATATTAGGAATGAT---------ACTAT GGGGAATAAAACCAATAAGAATAATACTATAAGCACTACTAGTAATGAAACT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGTAGAG-------TCACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATGAGACAAGT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44110.1|gb|MF778735 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44110.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44110.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAATGAA GCAAACACCACTCTATTTTGTGCATTAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTG------AATGATAATATTAGGAATGAT---------ACTAT GGGGAATAAAACTAATAAGAATAATACTATAAGCACTACTAGTAATGAAACT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGTAGAG-------TCACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGAAAAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATGAGACAAGT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44092.1|gb|MF778717 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44092.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44092.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAATATTTTGACATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTGAATGATAATGATACTATTAGGAAT----------------- -GTGACTACTAACAATGGTACT------ATGATCAATAATAGTAATGAAACT------------------------ACGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGCACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44089.1|gb|MF778714 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44089.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44089.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTGAATGATAATGATACTATTAGGAAT----------------- -AAGACTGCTAAGAATGGTACT------ATGAGCACTGATAGTAATGAAACT------------------------ACGA GCACTAATAGTAGC-TTGGGAATGATGGAGAAG--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTCTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCTTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAACTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44105.1|gb|MF778730 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44105.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44105.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGACATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTGAATGATAATGATACTATTAGGAAT----------------- -GGGACTACTGAGAATGGTACT------ATGAGCACTAATAGTAATAAAACT------------------------ACGA GCACTAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44104.1|gb|MF778729 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44104.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44104.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTAATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTAAATTGCACTGAT---------------ATTGTGAATGATAATGATACTATTAGGAAT----------------- -AAGACTACTGAGAATGGTACT------ATAAGCACTACTAGTAATGAAACT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCGAT----------- -------GATGGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44109.1|gb|MF778734 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44109.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44109.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTRAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- -------------------ACTAGTAGGAATAATACTACTAGGAATAATAAT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAACTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------GGG------------------------ ---AATGGTACTGTAGAG-------TCACAT---------AAAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAGCAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAGT---G AC---------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGAGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44108.1|gb|MF778733 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44108.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44108.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAGTTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- -------------------ACTAGTAGGAATAATACTACTAGGAATAATGAT------------------------ACGA TCACTAATAGTAGC-TTGGGAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------AGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44090.1|gb|MF778715 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44090.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44090.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTAATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- -------------------ACTAGTAGAAATAATACTACTAGGAATAATAAT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATTCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------ATAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44099.1|gb|MF778724 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44099.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44099.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGACGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- -------------------ACTAGTAGGAATAATACTACTAGGAATAATAAT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAAATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44097.1|gb|MF778722 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44097.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44097.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCAAACCCACAAGAAATATTATTGAAAAATGTGTCAGAAGATTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- -------------------ACTAGTAGGAATAATACTACTAGGAATAATAAT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAAAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAAAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44093.1|gb|MF778718 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44093.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44093.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTGGAAAATGTAACAGAAGATTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- -------------------ACTATTGAGAAAGCTAATACTGGGAATGCTACT------------------------AATA ACACTAGTAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAAGCAAATA-GGCAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT A------------------------------------------------------------------------------C CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACTA---TTT------AAGAATAAAACAA TAATCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGAGACTGAAGGG-------TCACAT---------AGAAGTGAC---------------ACAAATATCACACTC- -----AGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44091.1|gb|MF778716 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44091.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44091.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGATTTTAATATATGGAAAAATAATATGG TAGAACAAATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- -------------------ACTATTAAGAAAGCTAATACTGGGAATACTACT------------------------AATA ACACTAGTAGTAGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAAGCAAATA-GGCAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAATAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGAAAACTTTAAAACAGATAGTTGAA-AAATTAAAAGAAATTGAACAA---TTT------AAGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTGAAAAG-------TCACAT---------GACAGTGACACAAATATCACACTCACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT---GGTAAT------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44106.1|gb|MF778731 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44106.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44106.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGTATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----ACTACTAAGAATGTTACTATTGAGACTGTTAATACTGGGAAAGCTACT------------------------AATA ACACTAATAGTAGC-GTGGGGATAATGGAGAAA--------GAAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACTATGTAAAGACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGAATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACAA---TTT------AGGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTAATTGG---AAG------------TGG------------------------ ---AATAATACTGAAGAG-------TCACAT---------AAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAG------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44094.1|gb|MF778719 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44094.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44094.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGTATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTGAGACTGCTAATACTGGGAATGCTACT------------------------AATA ACACT------AGC-TGGGAAACGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATA-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACTATGTAAAGACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAGGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGAATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACAA---TTT------AGGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTAATTGG---AAG------------TGG------------------------ ---AATAATACTAAAGAG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT---GGTAAT------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44112.1|gb|MF778737 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44112.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44112.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GATGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAGTATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGATGTAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----ACTATTAAGAATGTTACTATTGAGAATGCTAATACTGGGAATGCTACT------------------------AATA ACACTAATAGTAAC-GTGGGAATAATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAATGACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAGGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGAATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACAA---TTT------AGGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTAATTGG---AAG------------TGG------------------------ ---AATAATACTAAAGAG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAG------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44096.1|gb|MF778721 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44096.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44096.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATAATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGCACACAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTGAGACTGCTAATACTGGGAATGCTACT------------------------AATA ACACTACTAGTAGC-GTGGGAATAATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAATGACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAGGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGAATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACAA---TTT------AGGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTAATTGG---AAG------------TGG------------------------ ---AATAATACTGCAGAG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAG------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTA---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44111.1|gb|MF778736 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44111.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44111.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGGGATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATAATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGCACACAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTGAGACTGCTAATACTGGGAATGCTACT------------------------AATA ACACTACTAGTAGC-GTGGGAATAATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAATGACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAGGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGAATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACAA---TTT------AGGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTAATTGG---AAG------------TGG------------------------ ---AATAATACTGCAGAG-------TCACAT---------GAAAGTGACACAAATATCRCACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAG------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|44098.1|gb|MF778723 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:44098.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2004] [note=days-post-seroconversion:2902 viral-load:11000 CD4-count:128 CD8-count:1064 gene:env] HIV-1 viroverse:44098.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATAATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGCACACAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTGAGACTGCTAATACTGGGAATGCTACT------------------------AATA ACACTACTAGTAGC-GTGGGAATAATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTAATGACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAGGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGAATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACAA---TTT------AGGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTAATTGG---AAG------------TGG------------------------ ---AATAATACTGCAGAG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAG------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43186.1|gb|MF778745 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43186.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43186.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATAATCTGTAAT-GCCGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTRCCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGGT-------------- ----------------------------ACTAGTACTACTAGGAATAATACT------------------------ACGA GCGCTAATAGTAGC-TTGGGAATGATGGAGGAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAGGAATATGCA-CTGTTTTATAAACTTGATATAAGGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGCTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAATGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAGACAGATAGTTGAC-AAATTAAGAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------TTG------------------------ ---AAT---------GAG-------TCACAT---------ATAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGCTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43188.1|gb|MF778747 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43188.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43188.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- ----------------------------ACTAGTACTACTAGGAATAATAAT------------------------ACGA GCAATAGTAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGAAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGTAAT----------- -------GAAAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAACTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTGAAAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGAGAAATTGAACTA---TTT------AGGAATAAAATAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---CAT------------TTG------------------------ ---AATGGTACTGTAGAG-------TCACAT---------GAAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT ACAGAGA-GAAAAAAGA >gnl|viroverse|43195.1|gb|MF778754 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43195.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43195.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAAGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGGT-------------- -------------------ACGAGTGGGAATAATACTACTGGGGATAATAAT------------------------ACGA GCAATAATAGTAGC-TTGGAAATGATGGAGAGA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGAAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGAGAAATTGAACTA---TTT------AGGAATAAAACAA TAACCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAATTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAACAAGAGAT---GGT---GGTAAT------AATAAGACAAATAATG AGACA---------------ATTGACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43179.1|gb|MF778738 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43179.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43179.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTAATATATGGAAAAATAATATGG TGGAACAGATGCATGAAGACATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- ----------------------------ACTAGTATTACTAGGAATAATGCT------------------------ACGA GCGCTAATAGTAGC-TTGGGAATGATGGAGAAC--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTACAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAAAAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA GAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGAGAAATTGAACTA---TTT------AGGAATAAAACAA TAATCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAGAG-------TTACAT---------AGAATTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAACAAGAGAT---GGT---GGTAAT------AATAAGACAAATAATG AGACA---------------ATTGACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43190.1|gb|MF778749 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43190.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43190.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- ----------------------------ACTAGTACTACTAGGAATAATAAT------------------------ACGA GCAATAGTAGTAGC-TTGGAAATGATGGAGAGA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATCAATTGTACAAGACCCAACTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGAGAAATTGAACTA---TTT------AGGAATAAAACAA TAATCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGAATCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAAAG-------TTACAT---------AGAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGAT---GGT---GGTTAT------AATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43194.1|gb|MF778753 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43194.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43194.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAATACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- ----------------------------ACTAGTACT---AGGAATAATAAT------------------------ACGA GCAATAGTAGTAGC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGAAATTAATTGTACAAGACCCAATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATAGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGAGAAATTGAACTA---TTT------AGGAATAAAACAA TAATCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------CGG------------------------ ---AATGGTACTGAAAAA-------TTACAT---------AGAATTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGAT---GGT---GGTAATAATGGTAATAAGACAAATAAT- -----------------------GACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43180.1|gb|MF778739 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43180.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43180.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATCAT-------------- ----------------------------ACTAGT------AGAAATAATGAT------------------------ACGA TCACTAATAGTAGC-TTGGGAATGATGGAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCGGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TAGGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAATCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCATAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGAA---------GGG------------------------ ---AATAATACTGAAGGG-------TCATAT---------GGAAAT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAG------AATAAGACAAAT---- -----------------------AACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43199.1|gb|MF778758 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43199.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43199.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATCAT-------------- ----------------------------ACTAGT------AGAAATAATGAT------------------------ACGA TCACTAATAGTAGC-TTGGGAATGATGGAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCGGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAATCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCATAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGAA---------GGG------------------------ ---AATAATACTGAAGGG-------TCATAT---------GGAAAT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAG------AATAAGACAAAT---- -----------------------AACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43198.1|gb|MF778757 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43198.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43198.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATCAT-------------- ----------------------------ACTAGT------AGAAATAATGAT------------------------ACGA TCACTAATAGTAGC-TTGGGAATGATGGAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCGGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAATCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCATAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGAA---------GGG------------------------ ---AATAATACTGAAGGG-------TCATAT---------GGAAAT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAG------AATAAGACAAAT---- -----------------------AACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43181.1|gb|MF778740 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43181.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43181.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGAGAATGAT-------------- ----------------------------ACTAGTATTACTAGGAATAATACT------------------------ACAA GCGCTAATAGTAGCTTGGGAAACGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAAGGAAAATA-KGCAAT----------- -------GATAAT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA AAATGGGAGGATACTTTAAAACAGATAGTTGAA-AAATTAAATGAAATTAAACAA---TTT------AAGAATAAAACAA TAGCCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAG------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43196.1|gb|MF778755 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43196.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43196.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTCAGACTGCTAAAACTGGGAATGCTACT------------------------AATA ACACC------AGC-TGGGAAACGATGGAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGARTATGCA-CTTTTTTATAAACTTGATGTAAAGCAAATA-GGCAAG----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATTTGTACCAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GACATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGAACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACTA---TTT------AAGAATAAAACAA TAATCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGGA---------GGG------------------------ ---AATAATACTAAAGGG-------TCATAT---------GGAAAT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGATGGTGGT---GGTAAT------AATAAGACAAAT---- -----------------------GACACC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAGTTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43192.1|gb|MF778751 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43192.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43192.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AGGAATGTTACTATTGAGACTGCT---ACTAGGAATACTACT------------------------AATA ACACT------AGC-TGGGAAACGATGAAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAAGCAAATA-GGCAAG----------- -------GATAAG---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGAATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTATTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43184.1|gb|MF778743 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43184.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43184.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----ACTATTAAGAATGTT------------------ACTGGGAATGCTACT------------------------AATA ACACTAATAGTAGC-GTGGGAATAAGGGAGAGA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAAT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAGGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAAAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGAAAACTTTAAAACAGATAGCTAAA-AAATTAAATGAAATTGAACAC---TTT------AAGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGAA---------GGG------------------------ ---AATAATACTGAAGGG-------TCACAT---------GGAAGT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43183.1|gb|MF778742 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43183.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43183.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATATTACTATTGGGAATGAT-------------- ----------------------------------------------ACTATT------------------------AAGA AAGCTAAT----------------------ACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCACTTTTTTTATAAACTTGATGTAAAGCAAATA-GGCAAT----------- -------GATAAT---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GACATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGAAAACTTTAAAACAGATAGCTAAA-AAATTAAATGAAATTAAACAC---TTT------AAGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AATAGA---------GGG------------------------ ---AATAATACTGAAGGG-------TCACAT---------GGAAGT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTAATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43197.1|gb|MF778756 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43197.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43197.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTAATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACRTTGCATGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTCAGACTGCTAATACTGGGAATGCTACT------------------------AATA ACACC------AGC-TGGGAAACGATGAAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTT--TAAACTTGATGTAAAGCAAATA-GGCAAG----------- -------GATAAG---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAAACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATAAAATTAGACAA---TTT------AAGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ACTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGAA---------GGG------------------------ ---AATAATATTGAAGGG-------TCACAT---------GGAAGT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTGGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43185.1|gb|MF778744 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43185.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43185.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTAATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTCAGACTGCTAATACTGGGAATGCTACT------------------------AATA ACACC------AGC-TGGGAAACGATGAAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAAGCAAATA-GGCAAG----------- -------GATAAG---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GACATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATAAAATTAGACAA---TTT------AAGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGAA---------GGG------------------------ ---AATAATATTGAGGGG-------TCACAT---------GGAAGT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43182.1|gb|MF778741 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43182.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43182.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTCAGACTGCTAATACTGGGAATGCTACT------------------------AATA ACACC------AGC-TGGGAAACGATGAAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAAGCAAATA-GGCAAG----------- -------GATAAG---ACTAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATA------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATAAAATTAGACAA---TTT------AAGAATAAAACAA TAGCCTTTCGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGAA---------GGG------------------------ ---AATAATATTGAAGGG-------TCACAT---------GGAAGT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43191.1|gb|MF778750 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43191.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43191.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAGG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTAATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAATTTATAGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTTTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATGGGGACTGCTAATACTAGGAATGCTACT------------------------AATA ACACT------AGC-TGGGAAACGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTACAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAAT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA AAATGGGAGGATACTTTAAAACAGATAGTTGAA-AAATTAAATGAACTTAAACAA---TTT------AAGAATAAAACAA TAGCCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTAAAAGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---AGTAAT------AATAAGACAAAT---G ACACCGAG------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43189.1|gb|MF778748 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43189.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43189.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTGACACTGCTAATACTAGGAATGCTACT------------------------AATA ACACTACTAGTAGC-TGGGAAATAAGGGAGAGA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTACAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAAT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GACATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGAACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAG------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43187.1|gb|MF778746 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43187.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43187.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATAGGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTGACACTGCTAATACTAGGAATGCTACT------------------------AATA ACACTACTAGTAGC-TGGGAAATAAGGGAGAGA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTACAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAATGAAAATA-GGCAAT----------- -------GATAAT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GACATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGAACA GAATGGGAGAACACTTTAAAACAGATAGTTAAA-AAATTAAAAGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGAT---GGT---GGTAAT------AATAAGACAAAT---G ACACCGAG------------AATGACACC------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|43193.1|gb|MF778752 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:43193.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2005] [note=days-post-seroconversion:3259 viral-load:26000 CD4-count:57 CD8-count:912 gene:env] HIV-1 viroverse:43193.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CTTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATTTTATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATGATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGAACAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----ACTATTAAGAATGTTACT------------------GGGAATGCTACT------------------------AATA ACACTAATAGTAGC-GTGGGAATAATGGTGACA--------GGAGAGATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAGGTT CAATGGAACAGGACCATGTGAAAACGTCAGCACAGTACAATGTACACATGGGATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAAGTAGTAATAGT ACAGCTGACGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCATATTGTAGAATTRATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGTCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTT-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGATACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAATATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT---GGTAAG------AATAAGACAAAT---- -----------------------GACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45572.1|gb|MF778759 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45572.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45572.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTTAATACTGGGAATGCTACT------------------------AATC ACACT------AGC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATAAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACTGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---G ACACCGAA------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45573.1|gb|MF778760 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45573.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45573.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGATGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGAACAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTAAATACTGGGAATGCTACT------------------------AATC ACACT------AGC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAGA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATTACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT------AAT------AATAAGACAAAT---G ACACCGAA------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAARAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45574.1|gb|MF778761 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45574.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45574.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAAGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGAACAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTTAATACTGGGAATGCTACT------------------------AATC ACACT------AAC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAGGTT CAATGGAACAGGACTATGTAAAGACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACACCTGTAGAAATTATGTGCACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCACATTGTAGCATTAATGGAACA GAATGGGAGAACACTTTAAAACAGATAGTTAAT-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT------AAT------AATAAGACAAAT---G ACACCGAG------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45575.1|gb|MF778762 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45575.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45575.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTAGAAAATGTGACAGAAGACTTTAATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGTCTAAAACCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATATTACTATTGGGAATAAT-------------- ----ACTATTAAGAATGTTACTATTGAC------------AGGAATACTACT------------------------AATA ACACTACTAGTAGC-TGGGAAATAAGGGAGAGA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGAAAATA-GGCAAT----------- -------GATAAT---ACTAGC---------TATGGGTTAATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCTTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA AAATGGGAGGATACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGGATAAAACAA TAGTCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGGA---------GGG------------------------ ---AATAATACTAAAGGG-------TCATAT---------GAAAAT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT------AAT------AATAAGACAAAT---G ACACCGAA------------AATAACATC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45576.1|gb|MF778763 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45576.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45576.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCAYCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATCAT-------------- ----------ACTAGT------------------------AGAAATAATGAT------------------------ACGA CCACTAATAGTAGC-TTGGGAATGATGGAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGAAGACACCAGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGACAAGCACATTGTAGCATTAATGGATCA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAAAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTAATTGG---AAG------------TGG------------------------ ---AATAATACTAAAGAG-------TCACAT---------GAAAGTGACATAAATATCACACTCACAAACATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGCGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---- -----------------------AACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGG GCAGAGA-GAAAAAAGA >gnl|viroverse|45577.1|gb|MF778764 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45577.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45577.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTTAATACTGGGAATGCTACT------------------------AATC ACACT------AAC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACACYTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTCTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAGA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTAATATTAGCAAGAGATGGTGGT------AAT------AATAAGACAAAT---G ACACCGAG------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45578.1|gb|MF778765 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45578.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45578.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAGACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAAGATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATCAT-------------- ----------ACTAGT------------------------AGGAATAATGAA------------------------ACGA TCACTAATAGTAGC-TTGGGAATGATGGAGAAC--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTACAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTACAAATTAATTGTACAAGACCCTATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGAGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTGATAAGTCTTCA---GGAGGGGATCCAGAAATTGAAACACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------AGG------------------------ ---ACTGGTACTGTAGAG-------TCATAT---------AAAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAATATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACTGGGTTGATATTAGCAAGAGATGGTGGT------AAT------AATAAGACAAATAATG AAACCGAA------------AATAACCCC------GAGATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT ACAGAGA-GAAAAAAGA >gnl|viroverse|45579.1|gb|MF778766 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45579.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45579.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAAGATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- ----------ACTAGTAATACT------------------AGGAATAATAAT------------------------ATGA ACAATAGTAGTAGC-TTGAGAATGATGGAGATA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGAAGAAAGAATATGCA-CTGTTTTATAAACTTGATGTAAGGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATC-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTACAAATTAATTGTACAAGACCCTATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTGATGGAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGAGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTGATAAGTCTTCA---GGAGGGGATCCAGAAATTGAAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------AGA------------------------ ---AATGGTACTGTAGAG-------TCATAT---------AAAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGATGGTGGT------AAT------AATGAGACAAAAAATG ACACCGAA------------AATGACCCC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45580.1|gb|MF778767 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45580.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45580.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAAACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATCATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTTTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGTTACTATTGGGAATGAT-------------- ----------ACTAGTACTGCT------------------AGGACTAATAAT------------------------ACGA GTAATAGTAGTAAC-TTGAAAATGATGGAAAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAATCTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGGGGTAGTAATCAGATCA-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTAGGAATTAATTGTACAAGACCCTATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAAAAGGAACAGGAAATATAAGACAAGCATATTGTAACATTGATAGAGAA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGAGAAATTGAACTA---TTT---------AATAAAACAA TAGTCTTTCAAAACTCCTCA---GGAGGGGATCCAGAAATTGTAATGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTGATTCAACACAACTGTTTAATAGTACTTGG---TAT------------TTG------------------------ ---AATGGTACTGTAAAG-------TCACAT---------ATAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGCTTATCAAATATTACCGGACTGATATTAGCAAGAGATGGTGGT------AAT------AATAAGACAAAT---G ACACCGAA------------AATGACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45581.1|gb|MF778768 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45581.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45581.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGAACAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTTAATACTGGGAATGCTACT------------------------AATC ACACT------AAC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAGGTT CAATGGAACAGGACTATGTAAAGACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAAGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACGCCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAGA-AAATTAAATGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAATATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---G ACACCGAA------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAGAGA >gnl|viroverse|45582.1|gb|MF778769 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45582.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45582.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTCTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGACCCCAACCCACAAGAAATATTATTGGAAAATGTGACAGAAGAGTTTGATATATGGAAAAATAAGATGG TGGAACAGATGCATGAAGATATAATCAATTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATCAT-------------- ----------ACTAGT------------------------AGAAATAATGAT------------------------ACGA CCACTAATAGTAGC-TTGGGAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTAAACTA---TTT------AAGAATAAAACAA TAGCCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCGCAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACTGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---G ACACCGAA------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTAAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45645.1|gb|MF778770 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45645.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45645.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTTATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAGACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAAGATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATCAT-------------- ----------ACTAGT------------------------AAGAATAATGAT------------------------ACGA GCGCTAATAGTAGC-TTGGGAATGATGGAGAAC--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGAAGAAAGAATATGCA-CTTTTTTATAAACTTGATGTAAGGCAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTGATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGGCCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTACAAATTAATTGTACAAGACCCTATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTGATGGAGCA AAATGGAATAACACTTTAAAACAGATAGTTGAC-AAATTAAGAGAAATTGAACTA---TTT------AGGAATAAAACAA TAGTCTTTCAAAAGTCTTCA---GGAGGGGATCCAGAAATTGAAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------AGG------------------------ ---AATGGTACTGTAGAG-------TCACAT---------AAAAGTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAATATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACTGGGTTGATATTAGCAAGAGATGGTGGTTATAATAAGACAAATAATAAGACAAAT---G GCACCGAA------------AATGACCCC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45646.1|gb|MF778771 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45646.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45646.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACGGAT---------------------------AATGTTACTATTGGGAATGAT-------------- ----------AAGAATGTTACTATTCAGACTGCTAATACTGGGAATGCTACT------------------------AATA ACACC------AGC-TGGGAAAAAATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCTCAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTTTTTTATAAACTTGATATAAGGAAAATA-GGCAAG----------- -------GATAAT---ACTAGC---------TATGGGTTAATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCAGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCC-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTGACAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA AAATGGGAGGATACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGGATAAAACAA TAGTCTTTAAAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACACACAGTTTTAACTGT-GGAGGAGAATTTTTT-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---GAGGAA---------GGG------------------------ ---AATAAGACTGAAGGG-------TCACAT---------GAAAGT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---- -----------------------AACACC------GAGACCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45647.1|gb|MF778772 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45647.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45647.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTTAATACTGGGAATGCTACT------------------------AATC ACACT------AAC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTAAACTA---TTT------AAGAATAAAACAA TAGCCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACTGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---G ACACCGAA------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45648.1|gb|MF778773 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45648.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45648.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAAATGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAGACACCACTCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAAGATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- ----------ACTAGTACTACT------------------AGGAGTAATAAT------------------------ACGA GCAATAGTAGTAAC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGAAGAAAGAATATGCA-CTGTTTTATAAACTTGATGTAAGGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATC-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTACAAATTAATTGTACAAGACCCTATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGAGAAATTGAACTA---TTT------AAGAATAAAACAA TAGCCTTTGATAAGTCTTCA---GGAGGGGATCCAGAAATTGAAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------AGG------------------------ ---AATGGTACTGTAGAG-------TCATAT---------AAAATTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGTTGATATTAGCAAGAGATGGTGGT------GAT------AATGAGACAAAT---- --------------------AATGACACC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45649.1|gb|MF778774 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45649.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45649.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTTAATACTGGGAATGCTACT------------------------AATC ACACT------AAC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAGA-AAATTAAATGAAATTGAATTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CAYGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACTGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---G ACACCGAA------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45650.1|gb|MF778775 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45650.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45650.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGAACAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTTAATATTGGGAATGCTACT------------------------AATC ACACT------AAC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAGGTT CAATGGAACAGGACTATGTAAAGACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAAGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGATACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAGCTA---TTT------AAGGATAAAACAA TAGTCTTTAGAGAACCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGGA---------GGG------------------------ ---AATAATACTAAAGGG-------TCATAT---------GAAAAT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACTGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---G ACACCGAA------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45651.1|gb|MF778776 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45651.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45651.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGAACAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAGAGTGTTACTATTGAGACTTTTAATACTGGGAATGCTACT------------------------AATC ACACT------AAC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAGGTT CAATGGAACAGGACTATGTAAAGACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAAGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAGACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAAGTATACATATG------GGAC CAGGCAGAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGATACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTGAACTA---TTT------AAGGATAAAACAA TAGTCTTTAGAGAACCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAGGGA---------GGG------------------------ ---AATAATACTAAAGGG-------TCATAT---------GAAAAT------------------GCAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACTGGGCTGATATTAGCAAGAGATGGTGGT------AAG------AATAAGACAAAT---G ACACCGAA------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45652.1|gb|MF778777 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45652.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45652.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTAATGATCTGTAAT-GCTGCAGAAAAATCGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCACATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCCACAGATCCCAACCCACAAGAAATATTATTG---AATGTGTCAGAATATTTTGATATATGGAAAAATAAGATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGACCAAAGCTTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCACTGAT---------------GTA---------AATGCTACTATTGGGAATGAT-------------- ----------ACTAGTATTACT------------------AGGAGTAATAAT------------------------ACGA GCAATAGTAGTAAC-TTGGAAATGATGGAGAAA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACCACTGA TATGAGAGATAGGGTGAAGAAAGAATATGCA-CTGTTTTATAAACTTGATGTAAGGAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATC-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAAGTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGCTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAATACATCTGTACAAATTAATTGTACAAGACCCTATTATAAGACACGTACAGGTGTACGTATA------GGAC CAGGCATAGCATCTTTTATAGCAGGAAGAGTAACAGGAACAGGAAATATAAGACAAGCATATTGTAACATTAATGGAGCA AAATGGAATAACACTTTAAAACAGATAGTTAAC-AAATTAAGAGAAATTGAACTA---TTT------AAGAATAAAACAA TAGTCTTTGATAAGTCTTCA---GGAGGGGATCCAGAAATTGAAGCACACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---TAT------------AGG------------------------ ---AATGGTACTGTAGAG-------TCATAT---------AAAATTGAC---------------ACAAATATCACACTCC CATGCAGAATAAAACAATTTATAAACATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCGAAGGAGAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAACAAGAGATGGTGGT------AAT------AATGAGACAAAAAATG ACACCGAA------------AATGACCCC------GAAATCTTCAGACCTATAGGAGGAGATATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGCGGT GCAGAGA-GAAAAAAGA >gnl|viroverse|45653.1|gb|MF778778 [organism=Human immunodeficiency virus 1] [subtype=B] [host=Homo sapiens] [country=USA] [moltype=genomic RNA] [isolate=viroverse:45653.1] [isolation-source=plasma from subject F8] [collection-date=Mar-2006] [note=days-post-seroconversion:3616 viral-load:25000 CD4-count:27 CD8-count:995 gene:env] HIV-1 viroverse:45653.1 from USA envelope glycoprotein (env) gene, partial cds, trimmed to ORF for analysis GAGTGACGGGG-ATCAGGAAG---------CACTCATGGAAA------------TGGGGC------------ATCTTGCT CCTTGGGATATTGATGATCTGTAAT-GCTGCAGAAAAATTGTGGGTCACAGTTTATTATGGGGTACCTGTGTGGAAAGAA GCAACCACCACGCTATTTTGTGCATCAGATGCTAAAGCATATGATACAGAGGTACATAATGTTTGGGCCACACATGCCTG TGTACCAACAGACCCCAACCCACAAGAAATAATATTGAAAAATGTGTCAGAATATTTTGATATATGGAAAAATAATATGG TAGAACAGATGCATGAAGATATAATCAGTTTATGGGATCAAAGCCTAAAGCCATGTGTAGAATTAACCCCACTCTGTGTT ACTCTACATTGCATGAAT---------------------------AATGTTACTATTGGGAATAAT-------------- ----------AAAAGTGTTACTATTGAGACTCTTAATACTGGGAATGCTACT------------------------AATC ACACT------AGC-TGGGAAATGATGGAGACA--------GGAGAAATA-AAAAATTGCTCTTTCAATATCACAACTAA TATGAGAGATAGGGTGCAGAAAGAATATGCA-CTGTTTTATAAACTTGATATAAGAAAAATA-GGCAAT----------- -------GATAGT---AATAGC---------TATGGGTTGATAAGTTGTAATACCTCAGTCATT-AAACAAGCCTGTCCA AAGGTGTCCTTTGAGCCAATTCCCATACATTATTGTGCCCCGGCTGGTTTTGCGATTCTAAAATGTAGAGATAAGAATTT CAATGGAACAGGACCATGTCAAAACGTCAGCACAGTACAATGTACACATGGAATTAGACCAGTAGTATCAACCCAACTGC TGTTAAATGGCAGTCTAGCAGAAGAAGAGGTAGTAATCAGATCT-GCCAATATCTCAAACAATGCTAAAGTAATAATAGT ACAGCTAAAAACACCTGTAGAAATTATGTGTACAAGACCCGGTAATAATACAAGGAAAGGTATACATATG------GGAC CAGGCAAAGCATTTTATACAACA---GAAATA------GTAGGAGATATAAGAAAAGCATATTGTAACATTAATGGAACA GAATGGGAGGACACTTTAAAACAGATAGTTAAA-AAATTAAATGAAATTAAACTA---TTT------AAGAATAAAACAA TAGTCTTTAGAGAGCCCTCA---GGAGGGGATCCAGAAATTGTAACGCACAGTTTTAATTGT-GGAGGAGAATTTTTC-T ATTGTAATTCAACACAACTGTTTAATAGTACTTGG---AAG------------TGG------------------------ ---AATGGTACTAAAGGG-------TCACAT---------GAAAGTGACACAAATATCACACTCACAAACGTCACACTCC CATGCAGAATAAAACAATTTATAAATATGTGGCAGAAAGTAGGA-AAAGCAATGTATGCCCCTCCCATCAGAGGACAAAT TAGATGTTTATCAAATATTACCGGGCTGATATTAGCAAGAGATGGTGGT------AAT------RATAAGACAAAT---G ACACCGAG------------AATAACACC------GAGACCTTCAGACCTATAGGAGGAGACATGAGGGACAATTGGAGA AGTGAATTATATAAATATAAAGTAGTAAAAATTGAACCATTG---GGAATAGCACCCACCAAGGCAAAAAGAAGAGTGGT GCAGAGA-GAAAAAAGA