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Table S1 Describes each of the TaqmanTM assays, the panel used for SNP discovery, their minor allele frequencies for each population tested, and their informativeness for distinguishing populations (GST).

Table S2 Describes each of the KASPar assays, the panel used for SNP discovery, their minor allele frequencies for each population tested, and their informativeness for distinguishing populations (GST).

Table S3 Describes the 3 ascertainment panels used for SNP discovery.

Table S4 Statistically significant linkage disequilibrium (LD) between marker pairs within 2 or more populations.

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