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. 2013 Feb 9;5(3):514–524. doi: 10.1093/gbe/evt021

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© The Author(s) 2013. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Fig. 5.— — Negative selection on synonymous sites. Panels A–C show the numbers of single-nucleotide substitutions per nucleotide site. Green bars correspond to mutations within 8–30 nt in introns ≤65 nt, and blue bars correspond to mutations within the 4-fold-degenerate sites. (A) polymorphisms with DAF<15%; (B) polymorphisms with DAF>15%; and (C) fixed mutations. In panel D, each bar is the ratio of the per-site numbers of single-nucleotide substitutions observed within the 4-fold-degenerate sites and in positions 8–30 of short introns. Error bars are 95% confidence intervals based on 1,000 bootstrap trials.