Fig 3.

A) Proportion representation of multiple transmitted/founder viruses showing unequal representation of variants, with major variants representing as much as 96% of the virus populations and minor variants representing as low as 3% of the virus population sampled. B) A wide range of replicative capacity of intra patient founder viruses was observed, with no evidence for selection of similar replicative capacity. More than one TF gag variant was cloned and tested in 7 participants and only one variant was tested in 5 participants. The major variant (termed TF1) often displayed lower replicative capacity than the minor variants (TF2 to TF5). C) Matched pairwise comparison between the replicative capacity of the major variant and the mean replicative capacity of the minor variant(s) in the 7 cases where more than one variant had been cloned showing lower replicative capacity in the major variants compared to the minor variant (Wilcoxon matched pairs signed rank, p = 0.03).