Table 3.
Annotation of SNPs identified between samples and the reference genome.
| Exon | Intron | Intergenic | |||||
|---|---|---|---|---|---|---|---|
| Variety | Type | Number | percentage | Number | percentage | Number | percentage |
| ‘Nagafu No.2’ | SNP | 280,835 | 10.13% | 315,948 | 11.4% | 2,174,946 | 78.47% |
| SV | 3,963 | 5.0% | 19,659 | 24.75% | 55,798 | 70.26% | |
| ‘Qinguan’ | SNP | 242,328 | 10.71% | 247,806 | 10.94% | 1,773,297 | 78.35% |
| SV | 3,196 | 5.23% | 15,072 | 24.64% | 42,895 | 70.13% | |
SNPs and SVs were classified as genetic and intergenic, and locations within the gene models were annotated based on the annotations of the reference genome.