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Table S1 Locality abbreviation, sample number, voucher number, GenBank accession numbers, specific locality, and coordinates of the specimens used in this study. Abbreviation: MVZ, Museum of Vertebrate Zoology, University of California, Berkeley

Table S2 Redundant and contracted haplotypes of Anolis krugi. The first column indicates all the haplotypes that were redundant with other mitochondrial types (second column) and/or that represent an ancestral haplotype to which one or more other haplotypes were contracted using the star contraction method (see Materials and Methods). Haplotypes in bold appear on the maximum likelihood tree (Fig. 2). The third column indicates the satellite haplotypes that were contracted to the ancestral mitochondrial type listed on the first column

Fig. S1 Effect of sample size (i.e. minimum number of individuals per population) on (A) FCT values (indicators of the proportion of total genetic variance due to differences among groups of populations), and on (B) FSC values (indicators of differentiation among populations within groups).

Fig. S2 Ecological niche models for Anolis krugi for the (A) current climatic conditions (30 sec resolution) in Puerto Rico, and for the climatic conditions during the last glacial maximum (2.5 min resolution) estimated using the (B) CCSM and (C) MIROC models. The current shoreline of Puerto Rico and adjacent islands is depicted in light grey, whereas the approximate shoreline of the Puerto Rican Bank during the last glacial maximum (adjusted to the resolution of 2.5 min) is shown in black. The shading represents habitat modeled as suitable for A. krugi.

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Please note: Wiley Blackwell is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.