Table 1 Summary of RepeatMasker annotation and final TE annotation. Showing repeat type, copy or fragment number, total occupied length in base pair (bp) and percentage of the genome assembly covered by each repeat type, for both the raw RepeatMasker annotation and the final TE annotation presented.
From: The blackcap (Sylvia atricapilla) genome reveals a recent accumulation of LTR retrotransposons
Repeat type | RepeatMasker | Final TE annotation | ||||
|---|---|---|---|---|---|---|
Copies | Total length (bp) | % of genome | Copies | Total length (bp) | % of genome | |
SINE | 4269 | 463,447 | 0.04 | 1466 | 182,635 | 0.02 |
LINE | 127,084 | 35,233,072 | 3.34 | 61,906 | 19,307,025 | 1.83 |
LTR | 82,330 | 43,924,839 | 4.16 | 45,188 | 33,395,659 | 3.17 |
DNA | 4279 | 1,160,803 | 0.11 | 965 | 483,169 | 0.05 |
Unclassified | 487 | 204,826 | 0.02 | – | – | – |
Total interspersed repeats | 80,986,987 | 7.68 | 53,368,488 | 5.06 | ||
