Extended Data Figure 7: MHC class II haplotigs alignment on chromosome 6 and dot plots. | Nature

Extended Data Figure 7: MHC class II haplotigs alignment on chromosome 6 and dot plots.

From: De novo assembly and phasing of a Korean human genome

Extended Data Figure 7

a, MHC haplotigs A and B aligned on GRCh37 chr6. The complex regions shown in Fig. 3a are in green bars. b, Dot plot of haplotig A and B to the reference genome. The region highlighted in red is giving many SVs when aligning on the reference owing to different sequence context in haplotigs. c, Dot plots of haplotig A and B to the alternative loci (ALT) patches of MHC region in hg38. Haplotig A had the most similarities with chr6_GL000255v2_alt for the highlighted region in b. The blank vertical lines indicate ‘N’ bases in the reference ALT sequence.

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