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. 2018 Jun 28;122(3):294–304. doi: 10.1038/s41437-018-0107-9

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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. 5 — Mapping intervals refined using k-mer coverage and bulked segregant analysis. a The coverage of unique 21 nt k-mers is plotted for POP035 (ICE63 × Vash-1) after whole-genome resequencing. The first peak in coverage represents 21-mers found in only one of the two grandparents (red arrow), while the second, larger peak represents those sequences found in both (black arrow). b The upper panel displays the beta-binomial modeled allele frequency estimates (blue) and their 95% confidence intervals (grey) for POP035 as described in the legend for Fig. 2. In the lower panel, the coverage of 21-mers unique to only one of the two grandparents (coverage < 25×) is plotted in 1 Mb sliding windows (50 kb steps). Coverage decreases in the candidate regions. Intervals (grey box) are defined by merging windows with values within 1× coverage of the minimal window in each population. c Bulked segregant analysis was performed for Star-8, an accession that repeatedly contributed distorted loci. Sequencing reads were combined for populations exhibiting distortion when crossed with Star-8, and for populations not exhibiting distortion when crossed to Star-8 (normal pool). A candidate interval (grey box) was obtained by merging all segregating positions within 5% of the maximal allele frequency