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. 2023 Jun 15;55(7):1221–1231. doi: 10.1038/s41588-023-01419-6

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© The Author(s) 2023

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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Extended Data Fig. 3 — The validity of four gaps closed by the contigs of PacBio Hifiasm assembly were confirmed by the uniform ONT and/or PacBio reads coverage and tiling ONT reads. Black shades refer local coverage-anomalous regions. We noted that in gaps 7 and 10, a part of the ONT contigs not aligned to HiFi contigs were removed in the final assembly. Compared to the normal gap ends (which were remained in the final assembly) with gradually decreased coverage, almost no aligned ONT reads were observed for these regions removed in the final assembly, which suggested that these removed parts of contigs were in fact redundant or misassembled fragments, and further confirmed the assemblies of these gap-closed regions.