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Locations of insertions and deletions (INDELs) and single-nucleotide variants (SNVs) with a MAF of 0.5 and heterozygous genotypes in all horses. Blue: INDELs detected in this study; pink: SNVs detected in our previous study. Many regions are matched between the loci of SNVs and INDELs. The pericentromeric region (position: 1–2,261,991, approximately 2.26 Mb) of ECA29 was densely distributed.
