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Table S1. Sampling data for specimens used for 454 pyrosequencing.

Table S2. Prior distributions for model parameters.

Table S3. Median (lower triangle) and 95% credible intervals (upper triangle) of the posterior probability distributions of pairwise genome-level φST.

Table S4. Numbers of males sampled for male genitalic morphology (see Lucas et al. 2008).

Table S5. Sampling for wing pigment pattern analysis.

Table S6. Mean posterior probability of each model (column) as a function of the true evolutionary model (row).

Table S7. Statistics describing the efficacy of the ABC approach to parameter estimation: mean RMSE, rRMSE, and 95% COV for 500 simulated data sets.

Table S8. Analysis of variance of wing pigment patterns.

Figure S1. Map depicting sampling locations of putative hybrid taxa (colored circles) and parental taxa (colored and numbered squares) in western North America.

Figure S2. Wing pigment pattern elements used for morphometric analyses.

Figure S3. Posterior probability distributions of the difference in initial admixture proportions for each pairwise comparison of the hybrid lineages.

Figure S4. Posterior probability distributions of the difference in contemporary admixture proportions for each pairwise comparison of the hybrid lineages.

Figure S5. Summary of oviposition preference experiment results.

Figure S6. Principal component scores (±1 SD) of egg morphology for Lycaeides lineages: L. a. = L. anna, WA = Warner Mts., SN = Sierra Nevada, WH = White Mts., L. m. = L. melissa, (eggs from the lineage were not measured).

Figure S7. Principal component scores (±1 SD) of male morphology for Lycaeides lineages: L. a. = L. anna, SY = Siskiyou Mts., WA = Warner Mts., SN = Sierra Nevada, WH = White Mts., L. m. = L. melissa.

Figure S8. Scatter plot depicting ordination of wing pattern area measurements of individual males (circles) and females (triangles) from among all lineages using principal coordinate axes.

Figure S9. Principal component scores (±1 SD) of wing pigment patterns for Lycaeides lineages: L. i. = L. anna, SY = Siskiyou Mts., WA = Warner Mts., SN = Sierra Nevada, WH = White Mts., L. m. = L. melissa.

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