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. 2022 Jun 14;13:3422. doi: 10.1038/s41467-022-30480-8

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© The Author(s) 2022

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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Fig. 2 — A Indel profiles in combined 12 control samples. B Relationships between cell clones based on their indel profiles. Clones significantly different from controls in both replicates are labeled (FDR-corrected p < 0.01 from a chi-squared distribution, see Methods). The arrangement of non-significant clones is in Supplementary Fig. 3C. C Correlation between mean indel size and microhomology. D Relative frequencies of indel sizes compared to controls in deficient clones with a significant impact on all three gRNAs. Indel profiles of other clones with significant impact are in Supplementary Fig. 6. Y axis is truncated at −15% and +15%. In panels (A) and (D), indel frequencies are aggregated by combined size. Negative numbers represent deletions and positive ones represent insertions. The leftmost and rightmost bars (−30 and 10) combine all larger deletions and insertions, respectively. Biological replicates (N = 2) were averaged for clarity. All rows in panels (B) and (C) relate to the same gRNAs as in panel (A). In panels (B) and (C), controls are in orange and samples are in blue.