Table 4 Summary of TE content in four Boletales genome assemblies
Classification | C. olivacea | C. puteana | H. pinastri | S. lacrymans | P. tinctorius | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
(43) families | (108) families | (87) families | (230) families | (432) families | |||||||||||
Copies | Full copies | Coverage (%) | Copies | Full copies | Coverage (%) | Copies | Full copies | Coverage (%) | Copies | Full copies | Coverage (%) | Copies | Full copies | Coverage (%) | |
Class I | |||||||||||||||
LINE | 30 | 4 | 0.03 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 317 | 41 | 0.80 |
LINE (unknown) | 29 | 5 | 0.02 | 11 | 3 | 0.01 | 23 | 3 | 0.02 | 0 | 0 | 0.00 | 14 | 1 | 0.01 |
SINE | 0 | 0 | 0.00 | 6 | 2 | 0.00 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 9 | 1 | 0.00 |
LTR/Copia | 36 | 7 | 0.09 | 441 | 27 | 0.83 | 267 | 10 | 0.72 | 3,773 | 86 | 6.04 | 1,617 | 101 | 2.43 |
LTR/Gypsy | 394 | 13 | 0.93 | 299 | 28 | 0.54 | 767 | 42 | 2.13 | 6,949 | 268 | 16.27 | 8,434 | 575 | 19.28 |
LTR/LARD | 0 | 0 | 0.00 | 60 | 8 | 0.08 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 361 | 2 | 0.53 |
LTR/TRIM | 15 | 4 | 0.02 | 136 | 4 | 0.08 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 576 | 93 | 0.20 |
DIRS | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 361 | 36 | 0.58 |
Penelope | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 69 | 11 | 0.15 | 0 | 0 | 0.00 |
Class II | |||||||||||||||
Helitron | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 21 | 4 | 0.04 | 260 | 25 | 0.43 | 1,386 | 38 | 2.01 |
TIR/DDE | 361 | 28 | 0.52 | 362 | 38 | 0.68 | 1,089 | 55 | 2.16 | 2,148 | 166 | 3.04 | 3,366 | 255 | 4.25 |
TIR (unknown) | 143 | 34 | 0.18 | 720 | 115 | 1.10 | 323 | 49 | 0.36 | 736 | 67 | 1.55 | 1,115 | 40 | 1.85 |
MITE | 410 | 85 | 0.30 | 702 | 264 | 0.56 | 121 | 43 | 0.12 | 539 | 98 | 0.62 | 1,102 | 227 | 0.59 |
Maverick (putative) | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 0 | 0 | 0.00 | 56 | 3 | 0.21 |
Unknown | 67 | 4 | 0.07 | 99 | 9 | 0.06 | 865 | 133 | 0.99 | 1,138 | 167 | 1.34 | 8,611 | 708 | 8.44 |
TOTAL | 1,485 | 184 | 2.15 | 2,836 | 498 | 3.94 | 3,476 | 339 | 6.54 | 15,612 | 888 | 29.45 | 27,325 | 2,121 | 41.17 |