Next, when log10 viral loads (measured at the time of sampling for viral genome sequencing, corresponding to early infection as the last negative visit happened six months prior diagnosis) were analyzed as a function of Env sequence together with each subject’s genotype, HLA alleles HLA-A*11 and HLA-B*46 were associated with higher viral loads, although the effect sizes were small (HLA-A*11: weight = 0.23, bootstrap support = 0.87; HLA-B*46: weight = 0.12, bootstrap support = 0.70). Here, ERVW-1 is linked to infection.