Table 4.
Major families and characteristics of transposable elements in the C. higginsianum genome
| Type of elementa | No. consensusb | No. copies | No. complete copies | Complete/incomplete copies | Genome coverage (%)c | TE space coverage (%)d | ||
|---|---|---|---|---|---|---|---|---|
| Class I (retrotransposons) | ||||||||
| LTR | 11 | 636 | 86 | 0.135 | 3.55 | 50.71 | ||
| LARD | 2 | 47 | 10 | 0.213 | 0.67 | Class I | 9.57 | Class I |
| LINE | 3 | 50 | 13 | 0.260 | 0.23 | 4.7 | 3.29 | 67 |
| Class I (unclassified) | 4 | 123 | 2 | 0.016 | 0.24 | 3.43 | ||
| Class II (DNA transposons) | ||||||||
| TIR | 16 | 474 | 289 | 0.610 | 1.64 | Class II | 23.43 | Class II |
| MITE | 1 | 30 | 17 | 0.567 | 0.04 | 2.3 | 0.57 | 33 |
| Helitron | 3 | 111 | 19 | 0.171 | 0.62 | 8.86 | ||
| Uncategorized TEs | 1 | 11 | 4 | 0.364 | 0.01 | 0.14 | ||
aLTR: long terminal repeat, LARD: large retrotransposon derivative element, LINE: long interspersed element, TIR: terminal inverted repeat, MITE: miniature inverted-repeat transposable element
bNumber of TE concensus sequences in the genome
cPercentage of genome covered by the element
dPercentage of repetitive fraction covered by the element