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The number of shared alleles specifically detected between pairs from each geographic region as well as between each cluster pair at all microsatellites was computed.
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Probability of identity (PI) for multilocus microsatellite data was computed using GENECAP program [ 33] under the two different assumptions of Hardy-Weinberg equilibrium and the sibling PI as described previously [ 21, 22].
The F ST index was computed for the 6 microsatellite markers and 5 populations on FSTAT software version 2.9.4 (22, 22 ) and by using the Slatkin index on ARLEQUIN software (23 ).
Allelic richness was computed using FSTAT2.9.3 (Goudet 2001) for microsatellite loci.
To test the discrimination power of sets with different numbers of microsatellites, the probability of pairs of individuals bearing an identical multi-locus genotype (P ID)) was computed using GIMLET 1.3.1 [ 34].
RAS was computed daily.
In each sub-panel variability was computed.
R squared was computed.
Until now, such high-density genetic maps, based on microsatellites and SNPs, have been computed for human [ 12], mouse [ 13], chicken [ 14, 15], cattle [ 16] and dog [ 17].
For mtDNA and microsatellite, pairwise genetic distances (Fst) were computed with 10,000 permutations in Arlequin 3.5.
To estimate genetic diversity, expected heterozygosity (He) and mean number of alleles per locus (A) were computed for all markers and for the microsatellites (most of our markers), because their mutation process differs from that for SNPs.
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