Fig. 3

SVs identified based on whole-genome alignment in the R108 genome and SV functional enrichment. A Number of SVs in R108, including deletions, insertions, repeat_expansion, repeat_contraction, and tandem_contraction. Also includes the number of genes in each impacted-by-SV category (High-impact, Medium-impact, Low-impact, and Modifier-impact; see Table S16 for detailed definitions). B Annotation of all SVs categorized using SnpEff based on their positions in the annotated R108 genome. ‘Downstream’ represents SVs located at least 5 kb downstream from a gene; ‘Intergenic’ indicates SVs in the intergenic regions; ‘Splice_site’ indicates a splice variant that changes the 2 bp region at the 3' or 5' end of an intron; ‘Transcipt’ indicates a feature ablation whereby the deleted region includes a transcript feature; ‘Upstream’ indicates SVs located at least 5 kb upstream of a gene. C GO enrichment of the highly-impacted-by-SV genes