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. 2013 Jun 7;3(7):2262–2272. doi: 10.1002/ece3.633

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© 2013 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd.

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Phylogenies inferred from each of the three major data sets. Posterior probability support for individual nodes is given and nodes with 100% inferred posterior probability are depicted with an asterisk (*). The mitochondrial loci nd2 and control region generally provided the most thoroughly resolved phylogenetic hypothesis (A) for the 24 Lake Malawi cichlid species examined. The phylogeny inferred from the concatenation of the three nuclear loci s7 intron 1, mitfb, and dlx2 (not shown) did not provide much phylogenetic resolution. The phylogeny inferred from the 65 nuclear SNPs (B) provided more resolution than the nuclear sequence data.