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. 2018 Jul 30;8(9):2953–2966. doi: 10.1534/g3.118.200462

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Copyright © 2018 SAITOU et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Haplotypes of the combined target1 and target2 regions. (A) The phylogenetic relationship of the downstream target 2 region of CEU, YRI, CHB, Neanderthal, Denisovan and Chimpanzee constructed by the maximum-likelihood method. The GSTM1-deleted haplotypes were marked by green and the GSTM1-non-deleted haplotypes were marked by red manually. (B) Clustered haplotypes of the upstream target 1 region and downstream target 2 regions of CHB and CEU. The clustering was conducted based only on the haplotypes themselves with neither a priori input of haplogroups nor the deletion status. The GSTM1-deleted haplotypes were marked by green and the GSTM1-non-deleted haplotypes were marked by red. The Tanuki haplogroup, which showed high population differentiation, was marked by blue and other haplotypes were marked by yellow.