Table 4. Repetitive content of the Agassiz’s desert tortoise (Gopherus agassizii) and the western painted turtle (Chrysemys picta bellii) genomes, estimated with libraries of known repeats (RepBase) and de novo repeat identification (RepeatModeler).
|
Gopherus agassizii (RepBase) |
Gopherus agassizii (RepBase + RepeatModeler) |
Chrysemys picta bellii (RepBase) |
||||
|---|---|---|---|---|---|---|
| Repeat Type1 | Length (bp) | % genome | Length (bp) | % genome | Length (bp) | % genome |
| SINEs | 42,775,342 | 1.78 | 44,092,705 | 1.84 | 44,277,662 | 1.87 |
| LINEs | 263,416,736 | 10.98 | 276,159,275 | 11.51 | 248,848,977 | 10.52 |
| LTR | 165,658,037 | 6.90 | 184,823,905 | 7.70 | 123,030,173 | 5.20 |
| DNA Transposons | 244,173,277 | 10.17 | 297,537,719 | 12.4 | 18,952,044 | 9.80 |
| Unclassified | 18,348,096 | 0.76 | 203,226,010 | 8.47 | 20,076,666 | 0.80 |
| Small RNA | 8,799,494 | 0.37 | 9,451,148 | 0.39 | 8,527,612 | 0.36 |
| Satellites | 519,850 | 0.02 | 1,402,596 | 0.06 | 267,675 | 0.01 |
| Simple Repeats | 11,038,402 | 0.46 | 19,005,379 | 0.79 | 11,395,517 | 0.48 |
| Low Complexity | 2,145,620 | 0.09 | 1,714,833 | 0.07 | 2,244,030 | 0.09 |
1SINE, short interspersed nuclear element; LINE, long interspersed nuclear element; LTR, long terminal repeat retrotransposons.