Table 2 Summary of repeating elements
From: The transcriptome of the NZ endemic sea urchin Kina (Evechinus chloroticus)
| Â | Reduced set (Unannotated set) | |
|---|---|---|
Number of transcripts | 75, 002 (50,347) | |
Total sequence length (MB) | 106 (44) | |
| Â | Number of elements | Percentage of total sequence (%) |
Retroelements | 5,180 (2,922) | 1.12 (0.80) |
    SINEs: | 3,360 (2,349) | 0.36 (0.59) |
    Penelope | 5 (0) | ~0 (0) |
    LINEs: | 1,398 (421) | 0.57 (0.15) |
    CRE/SLACS | 0 | 0 |
    L2/CR1/Rex | 999 (297) | 0.40 (0.10) |
    R1/LOA/Jockey | 32 (5) | 0.01 (~0) |
    R2/R4/NeSL | 34 (7) | 0.01 (~0) |
    RTE/Bov-B | 134 (68) | 0.04 (0.02) |
    L1/CIN4 | 112 (19) | 0.07 (0.01) |
    LTR element: | 442 (152) | 0.19 (0.05) |
    BEL/Pao | 106 (44) | 0.05 (0.01) |
    Gypsy/DIRS1 | 314 (96) | 0.14 (0.04) |
DNA transposons | 9,363 (6,976) | 1.14 (1.98) |
    Hobo-Activator | 566 (403) | 0.05 (0.08) |
    Tc1-IS6030-Pogo | 1,305 (865) | 0.14 (0.20) |
    PiggyBac | 4,862 (3,853) | 0.66 (1.25) |
    Tourist/Harbinger | 86 (55) | 0.02 (0.01) |
    Other (Mirage,P-element,Transib) | 1 (1) | ~0 (~0) |
Unclassified | 552 (426) | 0.08 (0.13) |
ncRNA fragments (mainly rRNA) | 110 (25) | 0.02 (~0) |
Total interspersed repeats | Â | 2.34 (2.90) |
Satellites | 19 (0) | ~0 (~0) |
Simple repeats | 31,104 (17,306) | 1.19 (1.51) |
Low complexity | 6,010 (3,170) | 0.32 (0.41) |