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. 2020 Jun 30;18:78. doi: 10.1186/s12915-020-00808-1

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© The Author(s) 2020

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 3 — Comparison of polymorphisms at synonymous (d_S) and non-synonymous (d_N) sites. a Boxplots of d_S estimates. b Boxplots of d_N estimates. d_S and d_N were calculated based on the coding sequence alignment of phased diploid haplotypes from one female and one male individuals in the genome (excluding chromosome 15), the pseudo-autosomal region (PAR), the sex-determining region (SDR), and the more divergent stratum I. The inset plots show the quartile distributions of d_S and d_N estimates without outliers. Significant values from the Mann-Whitney U test relative to the genome are indicated with asterisks: *p < 0.05; **p < 0.01; ***p < 0.001