Table 6 Classification and distribution of repeats based on RepeatModeler from C. rogercresseyi genome.
Type | Family | Copy Numbers |
|---|---|---|
DNA Transposon | DNA | 1,065 |
DNA/Academ | 792 | |
DNA/CMC-Chapaev-3 | 7,607 | |
DNA/CMC-Transib | 262 | |
DNA/Ginger | 357 | |
DNA/Merlin | 1,907 | |
DNA/MuLE-MuDR | 1,764 | |
DNA/P | 5,656 | |
DNA/PiggyBac | 5,731 | |
DNA/RC | 1,073 | |
DNA/Sola | 482 | |
DNA/TcMar-Fot1 | 178 | |
DNA/TcMar-Mariner | 12,717 | |
DNA/TcMar-Tc1 | 35,361 | |
DNA/TcMar-Tc2 | 121 | |
DNA/hAT | 5,689 | |
DNA/hAT-Ac | 369 | |
DNA/hAT-Blackjack | 108 | |
DNA/hAT-Charlie | 7,186 | |
DNA/hAT-Tag1 | 188 | |
DNA/hAT-Tip100 | 6,023 | |
DNA/hAT-Tol2 | 1,199 | |
DNA/hAT-hATm | 10,502 | |
DNA/hAT-hATw | 365 | |
DNA/hAT-hATx | 2,052 | |
Total DNA transposons | 108,754 | |
LINE | LINE | 3,942 |
LINE/Jockey | 237 | |
LINE/L1 | 39,977 | |
LINE/L1-Tx1 | 9,089 | |
LINE/L2 | 6,853 | |
LINE/LOA | 18,678 | |
LINE/Penelope | 104 | |
LINE/R1 | 421 | |
LINE/R2 | 1,407 | |
LINE/RTE-BovB | 1,012 | |
LINE/RTE-X | 206 | |
Total LINE | 81,926 | |
SINE | 0 | |
LTR | LTR/Copia | 196 |
LTR/DIRS | 333 | |
LTR/Gypsy | 5,787 | |
LTR/Pao | 932 | |
Total LTR | 7,248 | |
Total | Transposable elements | 197,928 |
Simple repeats | 39,847 | |
Unknown | 585,381 |
