Depicted here are results from the multivariate analysis of pleiotropy. For each locus, the method returns the best fitting solution of which phenotypes were associated with that locus. All loci with one or more associated phenotypes are shown here. For example, every locus associated with AgeSmk was found to be pleiotropic for other phenotypes (green, blue, red, purple, and fuchsia bars), and no locus showed association with only AgeSmk (no dark grey bar for AgeSmk). When sample sizes are unequal across phenotypes, the method also improves power for those phenotypes with smaller samples. The total number of loci associated with each trait (whether pleiotropic or not) from these analyses was 40 (AgeSmk), 48 (SmkCes), 72 (CigDay), 111 (DrnkWk), and 278 (SmkInit). Full information is in Supplementary Table 11.