Table 3.
Result of repeat annotation statistics.
| Class | Detail class | Count | Masked (bp) | Masked (%) |
|---|---|---|---|---|
| DNA | 41,024 | 12,608,258 | 1.64% | |
| CMC-EnSpm | 10,124 | 9,705,616 | 1.26% | |
| MULE-MuDR | 12,941 | 12,653,931 | 1.64% | |
| PIF-Harbinger | 1,091 | 459,274 | 0.06% | |
| hAT-Ac | 1,234 | 1,022,950 | 0.13% | |
| hAT-Tip100 | 687 | 415,658 | 0.05% | |
| LINEs | 884 | 73,654 | 0.01% | |
| L1 | 35,262 | 33,077,369 | 4.29% | |
| LTRs | 48,295 | 22,961,302 | 2.98% | |
| Caulimovirus | 216 | 334,427 | 0.04% | |
| Copia | 106,259 | 188,343,073 | 24.45% | |
| Gypsy | 101,070 | 198,792,419 | 25.81% | |
| RCs | — | — | — | |
| Helitron | 842 | 733,121 | 0.10% | |
| SINEs | 8,691 | 3,581,764 | 0.47% | |
| tRNA-RTE | 368 | 70,404 | 0.01% | |
| Unknown | 261,254 | 96,358,396 | 12.51% | |
| Total interspersed | 630,242 | 581,191,616 | 75.45% | |
| Low_complexity | 29,782 | 1,598,892 | 0.21% | |
| Satellite | 673 | 152,804 | 0.02% | |
| Simple_repeat | 142,292 | 11,143,896 | 1.45% | |
| Total | 802,989 | 594,087,208 | 77.13% |
Abbreviations: LINEs, Long interspersed nuclear elements; LTRs, Long terminal repeats; SINEs, Short interspersed nuclear elements; RCs, Rolling circles.