IGV screen shots for the GC CNV and the breakpoints.

(A) The GC CNV (BTA 6:88,681,767–88,693,553) is shown in the IGV screen shot. The grey reads are normally mapped reads, whereas green ones are discordantly mapped reads, providing evidence for a tandem duplication. The sequencing coverage of the CNV region is higher than non-CNV region. (B) The left breakpoint is flanked by MIR repeat. (C) The right breakpoint does not overlap with repeats. (D, E) The proximal and distal breakpoints are zoomed in and the soft-clipped reads (positions where nucleotide sequences are written) information revealed the 5-bp microhomology “CACAT” at the breakpoints... Mehr ...