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Table 1 Summary of the 85 Medicago truncatula LTR families

From: LTR retrotransposon landscape in Medicago truncatula: more rapid removal than in rice

Family Pre-existing name Super-family BAC Location(bp) LTR size(bp) Element size(bp) FL Strong hit
Mtr1 - Copia AC150246.1 34464–46424 1309 11961 69 184
Mtr2 COPIA4 Copia AC137553.45 99838–112535 2045 12698 11 29
Mtr3 - Copia CR931729.2 71151–77207 1287 6057 5 22
Mtr4 - Copia AC157648.18 22659–28446 627 5788 9 15
Mtr5 - Copia AC146866.6 121051–127748 602 6698 8 14
Mtr6 - Copia AC151725.26 4572–10226 797 5655 10 14
Mtr7 - Copia CT967304.4 59158–64899 639 5742 7 13
Mtr8 - Copia AC145027.17 30490–37188 676 6699 8 12
Mtr9 SHACOP3 Copia AC159223.1 27730–32760 189 5031 6 11
Mtr10 - Copia AC144482.11 104300–109315 436 5016 10 11
Mtr11 - Copia AC165219.2 137152–141889 273 4738 7 10
Mtr12 - Copia AC149637.11 7608–18418 1344 10811 5 7
Mtr13 - Copia AC151956.5 65260–71649 203 6390 5 6
Mtr14 - Copia AC144538.23 111496–121985 1394 10490 5 6
Mtr15 COP20 Copia AC121235.20 19414–24294 346 4881 5 6
Mtr16 - Copia CR931743.1 32761–38060 574 5300 4 6
Mtr17 SHACOP12 Copia AC148291.22 18569–23612 213 5044 5 5
Mtr18 - Copia AC124217.21 65448–73850 1419 8403 2 4
Mtr19 - Copia AC149492.14 60016–72184 1822 12169 2 4
Mtr20 - Copia AC145330.19 54872–60067 190 5196 3 4
Mtr21 - Copia AC144760.27 99316–104667 597 5352 4 4
Mtr22 COP10 Copia AC144618.7 69511–74634 324 5124 4 4
Mtr23 COP6 Copia AC125476.30 52976–57511 212 4536 2 4
Mtr24 - Copia AC148470.14 69233–73561 250 4329 3 3
Mtr25 SHACOP4 Copia AC152964.13 48071–52925 276 4855 2 3
Mtr26 - Copia CT573053.1 95022–106275 1608 11254 2 3
Mtr27 - Copia AC140916.17 54292–65468 1434 11177 1 3
Mtr28 - Copia AC174349.10 54241–58572 126 4332 3 3
Mtr29 COP12 Copia AC165446.16 77640–82389 351 4750 2 3
Mtr30 MTCOPIA2 Copia AC149471.1 84193–89268 186 5076 2 3
Mtr31 - Copia CT573028.11 32334–34027 204 3059 1 3
Mtr32 COP3 Copia AC138465.22 17893–22580 181 4688 3 3
Mtr33 MTCOPIA1 Copia CT963078.3 62740–67719 269 4980 2 3
Mtr34 SHACOP11 Copia AC154867.1 30673–35442 189 4770 1 3
Mtr35 SHACOP20 Copia AC149038.2 47760–52995 263 5236 2 3
Mtr36 - Copia AC174295.7 36459–41224 171 4766 2 2
Mtr37 - Copia AC157979.11 69871–74887 249 5017 1 2
Mtr38 - Copia AC171778.15 79794–84281 222 4488 2 2
Mtr39 - Copia AC148470.14 54043–59356 861 5314 2 2
Mtr40 SHACOP9 Copia AC175047.2 122584–127374 190 4791 2 2
Mtr41 - Copia AC174336.9 98223–102259 296 4704 1 2
Mtr42 - Copia AC157506.3 45694–50555 205 4862 1 2
Mtr43 - Copia AC175047.2 115144–119648 256 4505 1 2
Mtr44 - Copia AC183304.10 99523–104053 167 4531 2 2
Mtr45 - Copia CR955009.1 105072–109675 306 4604 2 2
Mtr46 COP14 Copia AC170583.6 12146–16446 171 4301 2 2
Mtr47 COP21 Copia AC182817.5 43694–48680 290 4987 2 2
Mtr48 SHACOP21 Copia AC161106.13 30630–35152 232 4523 2 2
Mtr49 - Copia AC158377.1 75346–80903 131 5558 2 2
Mtr50 - Copia AC175047.2 83093–87466 242 4374 1 2
Mtr51 - Copia AC123573.41 60243–65229 213 4987 1 2
Mtr52 - Copia AC135798.31 10206–15241 330 5036 1 2
Mtr53 - Copia AC137831.27 31862–36604 218 4782 1 2
Mtr54 - Copia CT963132.5 16390–21157 239 5030 1 2
Mtr55 - Copia AC149634.8 14602–17988 206 3387 1 2
Mtr56 SHACOP2 Copia AC146909.23 66018–71021 274 5004 2 2
Mtr57 Ogre1A,B,C,D Gypsy AC144405.30 85771–104542 3529 18772 114 137
Mtr58 - Gypsy AC162162.23 96896–105667 2127 8772 34 69
Mtr59 Ogre2,3,4 Gypsy AC138465.22 43789–60338 2435 16550 31 37
Mtr60 - Gypsy AC123573.41 34307–46826 1335 12520 2 26
Mtr61 - Gypsy AC147430.9 69500–78131 2072 8632 1 10
Mtr62 - Gypsy AC160097.27 42464–45517 2076 8661 1 10
Mtr63 - Gypsy CU024896.3 74551–82251 2222 7701 3 6
Mtr64 - Gypsy AC146759.29 74288–85435 1218 11148 4 5
Mtr65 - Gypsy CT963073.3 80019–85667 313 5649 4 5
Mtr66 - Gypsy AC150705.16 77136–84299 1943 7164 2 4
Mtr67 - Gypsy AC140773.20 23404–37605 721 14202 3 4
Mtr68 - Gypsy AC125481.23 24806–33987 330 9182 2 3
Mtr69 - Gypsy AC157375.2 85556–93073 2125 7518 3 3
Mtr70 - Gypsy AC144591.10 13089–29661 2370 16573 1 3
Mtr71 - Gypsy CU024896.3 71754–86395 366 6936 1 2
Mtr72 GYPSHAN2 Gypsy AC158209.13 42449–47637 409 5189 2 2
Mtr73 - Gypsy AC148657.1 69339–74484 394 5146 2 2
Mtr74 - Gypsy CU024896.3 86399–92950 819 6552 2 2
Mtr75 - TRIM AC147537.35 119057–119409 130 364 9 74
Mtr76 - TRIM CR954194.1 12806–16125 652 3320 17 38
Mtr77 - LARD AC155884.2 39928–44595 2191 4668 5 26
Mtr78 - LARD CT030253.10 41580–46389 921 5497 3 26
Mtr79 - TRIM AC158173.13 32092–32698 190 607 5 25
Mtr80 - env-class AC146719.32 60449–68395 1239 7947 5 20
Mtr81 - LARD CT025840.2 61376–73139 2414 11764 2 14
Mtr82 - TRIM CT009479.4 31485–34519 810 3035 7 10
Mtr83 - LARD AC140022.11 3262–11660 1440 8399 2 10
Mtr84 - LARD AC147201.16 18119–23949 259 5831 6 10
Mtr85 - TRIM AC145219.16 111276–112148 249 873 1 6