Fig. 4

LAPs and recombination HSs are physically linked. a Probability density plot showing the observed number (green line) versus expected distribution (grey histogram) of overlaps between LAPs and HSs, p < 10^− 5 based upon 100,000 circular permutations. The threshold for statistical significance is indicated by the red line. b Variation in circular permutation z-scores (y-axis) relative to shifts in the location of HSs (x-axis), suggesting that significance of overlaps between LAPs and HSs results from specific local (not broader regional) overlaps. c PRDM9 binding motif density, which is targeted by the recombination machinery, within 500 kb of recombination HSs and LAPs. d Average recombination rates within 500 kb of recombination HSs, the subset of LAPs overlapping HSs (HS_LAPs) and all LAPs