Table 3. Major repetitive content predicted by RepeatMasker within the scarlet macaw first generation de novo genome assembly (SMACv1.0, SMACv1.1).
| Repeat Type Predicted | Total Elements1 | Total bp (% of Genome)1 | Total Elements2 | Total bp (% of Genome)2 |
| SINEs | 6,741 | 834,386 (0.08%) | 6,612 | 816,297 (0.07%) |
| LINEs (L2/CR1/Rex) | 189,424 | 35,772,793 (3.46%) | 156,131 | 32,227,015 (2.67%) |
| LTR Retroviral | 41,307 | 9,866,884 (0.95%) | 34,526 | 8,474,428 (0.70%) |
| DNA Transposons | 3,697 | 536,502 (0.05%) | 3,561 | 511,534 (0.04%) |
| Unclassified Interspersed Repeats | 2,561 | 421,784 (0.04%) | 2,482 | 406,059 (0.03%) |
| Satellites | 2,033 | 235,306 (0.02%) | 1,584 | 187,049 (0.02%) |
| Low Complexity & Simple Repeats | 142,486 | 6,275,857 (0.61%) | 114,664 | 5,076,913 (0.42%) |
| Totals | 386,216 | 53,708,206 (5.2%) | 319,560 | 47,699,295 (4.0%) |
1
Simple, unscaffolded (SMACv1.0) de novo assembly (1.035 Gb).
2
Scaffolded (SMACv1.1) de novo assembly (1.205 Gb including gaps with N’s).