Table 5.
Classification of de novo identified putative repeat sequences
| Repeat type | No. of putative repeat sequences by Repeat Scout |
Repeat Masker result |
|||
|---|---|---|---|---|---|
| No. of copies | Masked bases (Kbp) | Percentage of masked bases (%) | |||
| Transposon |
LINE/SINE |
1,776 |
135,174 |
24,072.6 |
6.60% |
| LTR |
482 |
12,451 |
2,642.4 |
0.72% |
|
| DNA |
61 |
15,994 |
3,825.6 |
1.05% |
|
| Others |
80 |
28,354 |
3,187.7 |
0.87% |
|
| Unclassified |
3,911 |
601,647 |
84,920.6 |
23.27% |
|
| Total | 6,310 | 893,620 | 118,649.0 | 32.51% | |
“Percentage of masked bases” is the percentage of masked bases against the total bases of the WGS contigs, degenerate contigs, and singletons.