Table 2. Genome proportions of repetitive sequences.
Genome | ||||||||||||
Repeat | Lineage/class | Clade | alternative names | EGIL | MBEC | MTEX | MBAL | MACU | MORN | DH pahang assembly* | PKW assembly* | |
LTR retroelements | Ty1/Copia | Maximus-SIRE | 4.277 | 14.860 | 17.744 | 16.388 | 19.483 | 21.794 | 12.26 | |||
Angela | 5.765 | 8.354 | 8.797 | 5.088 | 4.471 | 4.800 | 4.81 | |||||
Tork | Tnt | 1.313 | 1.513 | 1.517 | .943 | 1.380 | 1.267 | 1.07 | ||||
Ale | Hopscotch | .388 | .728 | .571 | .358 | .363 | .409 | |||||
Ivana | .989 | .315 | .332 | .191 | .220 | .230 | ||||||
TAR | Tont | .013 | .040 | .054 | .049 | .061 | .072 | |||||
Total Ty1/Copia | 12.745 | 25.809 | 29.015 | 23.016 | 25.977 | 28.573 | 21.55 | |||||
Ty3/Gypsy | Chromoviruses | Reina | 3.057 | 4.081 | 3.935 | 3.022 | 5.189 | 4.612 | 2.57 | |||
Tekay | .437 | 2.365 | 1.685 | 1.763 | 2.427 | 2.714 | 1.45 | |||||
Galadriel | Monkey | 1.135 | 1.365 | 1.020 | .585 | .641 | .536 | 0.68 | ||||
CRM | .358 | .949 | .877 | .589 | .567 | .626 | 0.25 | |||||
unclassified | .262 | .050 | .000 | .000 | .000 | .000 | ||||||
Tat | 1.693 | .260 | .290 | .010 | .060 | .047 | ||||||
Total Ty3/Gypsy | 6.942 | 9.071 | 7.808 | 5.970 | 8.885 | 8.535 | 9.65 | |||||
Other | ||||||||||||
pararetrovirus | .000 | .000 | .000 | .010 | .023 | .057 | ||||||
LINE | .490 | .790 | .472 | .492 | 1.214 | 1.120 | 5.41 | 0.39 | ||||
DNA transposon | .118 | .281 | .272 | .269 | .253 | .224 | 1.24 | 0.17 | ||||
Tandem Repeats | rDNA | 3.726 | 7.736 | 2.067 | 2.459 | 2.994 | 2.239 | |||||
Satellites | .005 | .443 | .122 | .592 | .247 | .330 | 0.13 | |||||
Annotated repetitive total | 24.025 | 44.129 | 39.756 | 32.808 | 39.592 | 41.078 | ||||||
Unclassified repetitive | 43.084 | 26.742 | 25.804 | 35.958 | 27.897 | 28.737 | ||||||
All repetitive total | 67.109 | 70.870 | 65.560 | 68.766 | 67.489 | 69.815 | 26.85 | |||||
unknown low copy | 32.891 | 29.130 | 34.440 | 31.234 | 32.511 | 30.185 |