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. 2020 Aug 7;9:e58223. doi: 10.7554/eLife.58223

Figure 4. Analysis of GCRs generated by induction of site-specific DSBs.

The position of CRISPR/Cas9 cleavage sites are indicated by red arrows. The sites at which various rearrangements were induced are indicated by different symbols: inversion junctions are shown as boxes, de novo telomere additions as filled circles, microhomology-mediated translocations as open circles, and microhomology-mediated interstitial deletions as filled triangles. The relevant genotype of the strains where the DSBs were induced is indicated on the left side.

Figure 4.

Figure 4—figure supplement 1. Distribution of potential hairpin-forming sites centromeric to the induced DSBs.

Figure 4—figure supplement 1.

(A) For each of the 5 CRISPR/Cas9-induced DSB sites, the bases centromeric to the DSBs (red arrows) are shown as black squares across the top line; every 10th base from the DSB is not displayed. Below the top line, potential hairpins are shown such that bases associated with the stems are white squares (an unobserved hairpin) or orange squares (an observed hairpin) and bases associated with the loop are shown as solid black lines (see the bottom of the panel). The minimal amount of resection required to expose all of the bases of the potential hairpin are shown with the blue background. Only potential hairpins that are exposed by 100 nt or less of centromeric resection from the induced DSB are shown. (B) A plot of the cumulative distribution of required resection lengths for all of the observed hairpin-forming sites displayed in panel A; the maximum observed resection is less than 50 nt, and the median is 29.5 nt. (C) The cumulative distribution of hairpin loop lengths for observed hairpin-forming sites (red) and hairpin-forming sites that were not observed (black) exposed by 50 nt or less resection on the centromeric side of the induced DSBs. (D) The cumulative distribution of hairpin stem lengths for observed hairpin-forming sites (red) and hairpin-forming sites that were not observed (black) exposed by 50 nt or less resection on the centromeric side of the induced DSBs.