Table 4.
Repeat elements screened from the unigenes of the H. flava transcriptome
| Repeat elements | Number of elementsa | Length occupied (bp) | Percentage of sequence |
|---|---|---|---|
| SINEs | 51 | 3006 | 0.01 |
| ALUs | 0 | 0 | 0.00 |
| MIRs | 0 | 0 | 0.00 |
| LINEs | 67 | 3979 | 0.01 |
| LINE1 | 4 | 211 | 0.00 |
| LINE2 | 11 | 639 | 0.00 |
| L3/CR1 | 36 | 2248 | 0.00 |
| LTR elements | 51 | 10,209 | 0.02 |
| ERVL | 3 | 129 | 0.00 |
| ERVL-MaLRs | 0 | 0 | 0.00 |
| ERV_class I | 1 | 39 | 0.00 |
| ERV_class II | 0 | 0 | 0.00 |
| DNA elements | 311 | 50,419 | 0.09 |
| hAT-Charlie | 27 | 6158 | 0.01 |
| TcMar-Tigger | 64 | 5295 | 0.01 |
| Unclassified | 0 | 0 | 0.00 |
| Total interspersed repeats | 67,613 | 0.12 | |
| Small RNA | 1142 | 84,596 | 0.15 |
| Satellites | 1 | 52 | 0.00 |
| Simple repeats | 7872 | 262,944 | 0.48 |
| Low complexity | 577 | 23,233 | 0.04 |
Total unigene sequences: 69,822; total length of 55,278,029 bp; GC(%): 53.09%; bases masked: 438,287 bp
LINE Long-interspersed nuclear elements, LTR long-terminal repeats, SINE short-interspersed nuclear elements
aMost repeats fragmented by insertions or deletions were counted as 1 element