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Table S1 Summary statistics for each locus in Pacific lamprey (Entosphenus tridentatus) collected at 20 sites along the west coast of North America.Table S2 Comparison of pairwise FST values generated from original (above the diagonal) and null allele corrected (below the diagonal) data, for Pacific lamprey (Entosphenus tridentatus) collected at 20 sites along the west coast of North America.Table S3 Global FST (g FST) per locus estimated with and without the ENA correction described in Chapuis & Estoup (2007).Table S4 Comparison of pairwise FST values calculated using GENEPOP v. 4.0.10 (Raymond & Rousset 1995; Rousset 2008) both with (above diagonal) and without (below diagonal) loci Etr-2, Etr-3, and Lri-3 for Pacific lamprey (Entosphenus tridentatus) collected at 20 sites along the west coast of North America.Table S5 Results of Colony (Jones & Wang 2010) sibship analysis for Pacific lamprey (Entosphenus tridentatus) collected at 20 sites along the west coast of North America.Table S6 Jost’s D values calculated using SMOGD v.1.2.5 (Crawford 2010) for Pacific lamprey (Entosphenus tridentatus) collected at 20 sites along the west coast of North America.Table S7 Restriction fragment length polymorphism (RFLP) composite haplotype frequencies for Pacific lamprey (Entosphenus tridentatus) collected at 20 sites along the west coast of North America, following Goodman et al. (2008); haplotype richness and private haplotype richness were calculated using rarefaction implemented in HP-Rare (Kalinowski 2005).Fig. S1 Neighbor-joining trees produced with: (a) original data set using POPULATIONS v. 1.2.30 (O. Langella, available from http://bioinformatics.org/~tryphon/populations/) with 500 bootstrap replications (on loci); and (b) corrected allele frequencies from FREENA (Chapuis & Estoup 2007) using TREEFIT (Kalinowski 2009). For (a), bootstrap values >50% are shown.

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