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. 2022 Mar 24;11:giac028. doi: 10.1093/gigascience/giac028

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© The Author(s) 2022. Published by Oxford University Press GigaScience.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 3: — Phasing accuracy of cassava TME204 haplotigs validated by BAC-to-haplotig alignments. Each dot plot shows the alignment of 1 BAC (y-axis) with 1 haplotig (x-axis). Forward alignments are plotted as red lines/dots, reverse alignments in blue. A line represents an undisturbed segment of alignment. When a region is correctly assembled and phased, the corresponding BAC sequence will align continuously (a resolved BAC). Three of the 4 BACs were resolved in the TME204 H1 assembly, and 1 (50D18) was resolved in the TME204 H2 assembly. For each BAC, the striking differences of BAC-to-haplotig alignments between haplotypes reveal the high level of haplotype differences in these regions.