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Table S1 Spearman rank correlation of recombination rate (ρ, above diagonal) and genetic divergence (FST, below diagonal) between populations (11834 SNPs with MAF > 0.05)

Table S2 Spearman rank correlation of recombination rate (ρ, above diagonal) and genetic divergence (FST, below diagonal) between populations (8473 SNPs with MAF > 0.10)

Table S3 Spearman rank correlation of LD (|D′|, above diagonal; r2, below diagonal) between populations (11834 SNPs with MAF > 0.05)

Table S4 Spearman rank correlation of LD (|D′|, above diagonal; r2, below diagonal) between populations (8473 SNPs with MAF > 0.10)

Table S5 Haplotype sharing proportion between populations (5 kb bin)

Table S6 Haplotype sharing proportion between populations (10 kb bin)

Table S7 Haplotype sharing proportion between populations (20 kb bin)

Table S8 Haplotype sharing proportion between populations (30 kb bin)

Table S9 Haplotype sharing proportion between populations (40 kb bin)

Table S10 Haplotype sharing proportion between populations (50 kb bin)

Table S11 Haplotype sharing proportion between populations (100 kb bin)

Table S12 Haplotype sharing proportion between populations (200 kb bin)

Table S13 Haplotype sharing proportion between populations (500 kb bin)

Table S14 SNP and Haplotype diversity in 11 populations.

Table S15 Heterozygosity of SNPs within populations (20177 SNPs)

Table S16 Heterozygosity of haplotypes within populations (11834 SNPs with MAF > 0.05)

Table S17 Heterozygosity of SNPs within populations (11834 SNPs with MAF > 0.05)

Table S18 Heterozygosity of haplotypes within populations (8473 SNPs with MAF > 0.10)

Table S19 Heterozygosity of SNPs within populations (8473 SNPs with MAF > 0.10)

Figure S1 Comparisons of LD between populations.

Figure S2 Phylogenetic trees reconstructed from the matrix of correlation of adjacent LD between populations.

Figure S3 Phylogenetic trees reconstructed from the matrix of correlation of recombination rates and FST between populations.

Figure S4 Population trees reconstructed using single SNPs.

Figure S5 Heterozygosity in 11 populations.

Figure S6 Heterozygosity of haplotypes and SNPs.

Figure S7 Heterozygosity of haplotypes and SNPs.

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