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Table S1 Multiplex PCR assay for Saccharomyces sensu stricto.

Table S2 Size of expected fragments for Saccharomyces sensu stricto ribotyping.

Table S3 RAD genotyped Saccharomyces cerevisiae strains collected in this study.

Table S4 RAD genotyped Saccharomyces paradoxus strains collected in this study.

Table S5 Sequenced Saccharomyces cerevisiae genomes used in this study.

Table S6 Published Saccharomyces paradoxus genomes (SGRP) used in this study.

Table S7 False discovery rate estimates for solexa RAD genotyping.

Fig. S1 Minor allele frequencies differ between vineyard and oak clades of Saccharomyces cerevisiae.

Fig. S2 Population structure in Saccharomyces paradoxus.

Fig. S3 Minor allele frequencies in Saccharomyces paradoxus.

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