Fig. 3

Phylogenetic trees constructed from proviral DNA and viral RNA C2V3C3 nucleotide sequences obtained from subjects P8 (a), P10 (b), P25 (c), P27 (d), and P45 (e) using deep sequencing. R5 viruses in the RNA samples are shown by open circles, and R5 viruses in the DNA samples are shown by open squares; X4 viruses in the RNA samples are shown by filled circles, and X4 viruses in the DNA samples are shown by filled squares. The frequency in the RNA or DNA compartment and the FPR for each sequence are shown in parentheses. A Group P sequence (P.CM06.U14788.HQ179987) is used as an outlier