We evaluated the similarity between LD patterns of the simulated populations CEU, ADM0.2, and ADM0.4. For each SNP j = 1,…,617 in the simulated genomic region, we identified its best tag SNP in CEU, ADM0.2, and ADM0.4 by finding the SNP j′ ≠ j which had the highest LD (r2) with SNP j in that sample. Given one of the simulated admixed populations, we calculated the proportion of SNPs in the region that had a tag SNP with higher LD in CEU compared to second admixed populations (which had different admixture proportions), and the other way around.
