Sequence Harmony analysis not only confirmed our previous findings of neutralizing antibody escape mechanisms at 3-months and 6-months after infection (Fig 4A and 4B, respectively), which were characterized through extensive Env mutagenesis and neutralization assays, but also identified an additional four positions where the amino acid composition at 6-months post-infection had significantly shifted from the T/F Envs (Fig 4B). This evidence concerns the gene ERVW-1 and infection.