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. 2018 Jul 27;9:2945. doi: 10.1038/s41467-018-05290-6

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© The Author(s) 2018

Open Access This 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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 7 — Comparison of equid MSY. a Normalized coverage for each group of samples in 1 kbp blocks. Mappability (between 0 and 1) is shown in gray. b Average mismatch rates (relative to reference sequence) in 1 kbp blocks. c Variable sites in eMSY. Only sites called in the eMSY sequence and covered in at least one individual in each group are shown. EquCab 2.0 shows the nucleotide observed on eMSY, while rows for individuals show the SNP observed at that site for an individual, or nothing if the reference nucleotide is observed. Gray indicates sites not called in that individual. d and e Maximum likelihood phylogenies generated from supermatrix of high-mappability genomic blocks for equids and horse breeds, respectively