Figure S1 Workflow illustrating the application of 454 pyrosequencing in the de novo identification, selection and validation of SNPs.

Figure S2 Distribution of the reads (length in bp) for the two PicoTiterPlate regions in the Roche 454 GS FLX run.

Figure S3 Ratio of unique k-mers obtained for different k-mer size (nt).

Figure S4 Number of contigs identified by MIRA3 with a sequencing depth only between 2 and 20.

men12179-sup-0002-TableS1.xlsxapplication/msexcel43KTable S1 Excel file containing primers sequences for the 384 SNP loci.
men12179-sup-0003-TableS2.xlsxapplication/msexcel36KTable S2 Excel file containing the 384 sequences containing SNP and with MAF for each locus.
men12179-sup-0004-TableS3.xlsxapplication/msexcel71KTable S3 Excel file containing Observed (Ho) and expected (He) heterozygosity, p-value and standard error of Hardy–Weinberg Equilibrium test in the 6 populations with the largest population size (L041 to L064).

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