Fig. 4: Detection of large SVs in ddm1 and ddm1 polIV mutant plants. | Nature Communications

Fig. 4: Detection of large SVs in ddm1 and ddm1 polIV mutant plants.

From: Extrachromosomal circular DNA and structural variants highlight genome instability in Arabidopsis epigenetic mutants

Fig. 4

a Location of large segmental duplications reported in ddm1 and ddm1 polIV mutants. Duplications (arrows) sizes and locations are indicated. b Scheme indicating how the ONT reads (orange arrows) spanning the junction of a tandem duplication will be split and aligned on the reference. As an example a dot plot showing a raw 46 kb-long ONT read (b8A44112-cc27-49b3-9b48-1807A273fd3d) versus the reference at the duplicated region on Chr1 (Chr1:5548395-5603615) is shown. Examples of read depth of the A. thaliana wild type Col-0 and ddm1 ONT genomic reads aligned to the TAIR10 reference genome on chromosome 1 (c 55 kb duplication) and 2 (d 56 kb duplication). Dotted red lines and gray rectangle highlight the duplication as detected by Sniffles. Source data are provided as a Source Data file.

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