(A) Recombination distance to hotspots (i.e. RR > 10 cM/Mb). SFS of sites belonging to the first (d ≤ 0.01647 cM, in green) and fourth quartile (d ≥ 0.08728 cM, in blue) are significantly different from the SFS computed on all SNPs (p=0.017 and p=0.005 respectively for Yoruba, p<10−3 for Japan, see Materials and methods). (B) Recombination distance to PhastCons conserved elements (see Materials and methods for definition). SFS of sites belonging to the first (d ≤ 0.0000543 cM, in green) and fourth quartile (d ≥ 0.0024580 cM, in blue) are significantly different from the SFS computed all SNPs (p<10−3 for all but the 4th quartile of Yoruba population for which p=0.003). (C) The SFS of exonic sites (green) are significantly different from that computed on all SNPs (p=0.004 and p<10−3 for Yoruba and Japan resp.) while the SFS of non-exonic sites (blue) are not different from the SFS of all SNPs (p=1). The SNPs furthest to hotspots have both an enrichment for singletons and high-frequent variants, whereas the SNPs closest to conserved elements and exonic sites have only an enrichment for singletons. Shaded areas correspond to 95% CI obtained by a block-bootstrap approach (see Materials and methods).