Tobin NH, Learn GH, Holte SE, Wang Y, Melvin AJ, McKernan JL, Pawluk DM, Mohan KM, Lewis PF, Mullins JI, Frenkel LM 2005 Evidence that low-level viremias during effective highly active antiretroviral therapy result from two processes: expression of archival virus and replication of virus. Journal of virology79159625-34 pubmed
Supplemental Data for Toblin et al.:

1.Model Parameters for Phylogenetic Analysis









gene/region   polPR polRT envC2-V5









model class GTR+I+G GTR+I+G TVM+I+G









fA 0.3784 0.45163 0.4538









fC 0.1538 0.15032 0.1657









fG 0.2339 0.17336 0.178









fT 0.2338 0.22468 0.2025









RA<->C 5.80316 1.07186 1.8604









RA<->G 20.0989 5.31766 4.3451









RA<->T 1.17262 0.29502 0.696









RC<->G 0.36115 0.53002 0.7504









RC<->T 21.9604 7.07181 4.3451









RG<->T 1 1 1









p-inv 0.20449 0.26509 0.1358









gamma shape 0.5973 0.76247 0.8454










2. Divergence Graphs
PR: F1 G2 H2 H4 L1 M2 P1 R1 S1 T2 V2

RT:  G2 H2 H4 L1 M2 P1 R1 S1 T2 V1
 
env:  F1 G2 H2 H4 L1 M2 P1 R1 S1 V1

3. Alignments
PR
RT
env

Department of Microbiology
School of Medicine
University of Washington
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