Table 3. De novo repeat prediction from neem genome using Repeat Modeler program.
| Repeat type | Subclass | Number of elements | Length in bp (%) | % of sequences |
|---|---|---|---|---|
| RNA elements: | ||||
| SINEs: | 119 | 10,033bp (0.01) | 0.00 | |
| LINEs: | 2,554 | 124,0701 bp (0.46) | 0.46 | |
| LINE1 | 1,918 | 100,2661bp (0.37) | 0.37 | |
| LINE2 | 119 | 39,194 bp (0.01) | 0.01 | |
| LTR elements: | 51,260 | 26,838,058 bp (10.02) | 10.02 | |
| ERV_class1 | 462 | 130,859 bp (0.05) | 0.05 | |
| DNA elements: | 17,356 | 7,112,032 bp (2.65) | 2.65 | |
| Unclassified: | 16,6584 | 45,693,338 bp (17.06) | 17.06 | |
| Total interspersed repeats: | 80,894,162 bp (30.20) | 30.20 | ||
| Simple repeats: | 43,430 | 1,601,548 bp (0.60) | 0.60 | |
| Low complexity: | 99,976 | 5,150,192 bp (1.92) | 1.92 |