Fig. 4

Linkage disequilibrium (r²) and persistency of phase (r) as a function of genomic distance. a Average linkage disequilibrium (LD) between SNPs estimated according to [39]. Pop_A_10 and Pop_B_10 refer to divergence of populations A and B by 10 generations while _50 refers to divergence by 50 generations. b Persistency of LD phase (i.e. the correlation of LD between populations A and B, [40]). Calculations are within populations A and B at different times of divergence (T = 10 or 50). Values are binned at an interval of 50 kb. The plots are the result of one replicate of simulated WGS data. Calculations were done with PLINK [41]