====================================================================== file name: At.fasta.mod sequences: 7 total length: 119668634 bp (119483469 bp excl N/X-runs) bases masked: 19101270 bp ( 15.96 %) ====================================================================== number of length percentage elements* occupied of sequence ---------------------------------------------------------------------- ----------------------------Class I:Results--------------------------- Class I Total: 9632 9152543 bp 7.65 % ---------------------------------------------------------------------- |-Non-LTR: 1498 573634 bp 0.48 % | |-SINEs: 571 83652 bp 0.07 % | |-LINEs: 927 489982 bp 0.41 % | |-LINE-like: 268 75234 bp 0.06 % | |-LTR | |-LTR Non-auto: 1310 764240 bp 0.64 % | | |-LARDs: 969 523049 bp 0.44 % | | |-TRIMs: 70 30697 bp 0.03 % | | |-TR_GAG: 138 73236 bp 0.06 % | | |-BARE-2: 133 137258 bp 0.11 % | | | |-LTR auto: 6824 7814669 bp 6.53 % | | |-LTR/Copia: 2249 1903340 bp 1.59 % | | |-Ale: 1355 871041 bp 0.73 % | | | |-Ale-like: 63 65327 bp 0.05 % | | |-Alesia: 0 0 bp 0.00 % | | | |-Alesia-like: 0 0 bp 0.00 % | | |-Angela: 0 0 bp 0.00 % | | | |-Angela-like: 0 0 bp 0.00 % | | |-Bianca: 62 48126 bp 0.04 % | | | |-Bianca-like: 108 147335 bp 0.12 % | | |-Bryco: 0 0 bp 0.00 % | | | |-Bryco-like: 0 0 bp 0.00 % | | |-Lyco: 0 0 bp 0.00 % | | | |-Lyco-like: 0 0 bp 0.00 % | | |-Gymco-I: 0 0 bp 0.00 % | | | |-Gymco-I-like: 0 0 bp 0.00 % | | |-Gymco-II: 0 0 bp 0.00 % | | | |-Gymco-II-like: 0 0 bp 0.00 % | | |-Gymco-III: 0 0 bp 0.00 % | | | |-Gymco-III-like: 0 0 bp 0.00 % | | |-Gymco-IV: 0 0 bp 0.00 % | | | |-Gymco-IV-like: 0 0 bp 0.00 % | | |-Ikeros: 0 0 bp 0.00 % | | | |-Ikeros-like: 0 0 bp 0.00 % | | |-Ivana: 150 226242 bp 0.19 % | | | |-Ivana-like: 13 14919 bp 0.01 % | | |-Osser: 0 0 bp 0.00 % | | | |-Osser-like: 0 0 bp 0.00 % | | |-SIRE: 54 104906 bp 0.09 % | | | |-SIRE-like: 35 47205 bp 0.04 % | | |-TAR: 0 0 bp 0.00 % | | | |-TAR-like: 42 26617 bp 0.02 % | | |-Tork: 199 212552 bp 0.18 % | | | |-Tork-like: 69 38374 bp 0.03 % | | |-Ty1-outgroup: 0 0 bp 0.00 % | | | |-Ty1-out-like: 0 0 bp 0.00 % | | | |---LTR/Gypsy: 4575 5911329 bp 4.94 % | |-non-chromovirus | | |-non-chromo-outgroup: 0 0 bp 0.00 % | | | |-non-chr-out-like: 0 0 bp 0.00 % | | |-Phygy: 0 0 bp 0.00 % | | | |-Phygy-like: 0 0 bp 0.00 % | | |-Selgy: 0 0 bp 0.00 % | | | |-Selgy-like: 0 0 bp 0.00 % | | |-OTA: 0 0 bp 0.00 % | | | |-OTA-like: 0 0 bp 0.00 % | | |-OTA|Athila: 1039 1342758 bp 1.12 % | | | |-OTA|Athila-like: 1235 1868374 bp 1.56 % | | |-OTA|TatI: 0 0 bp 0.00 % | | | |-OTA|TatI-like: 0 0 bp 0.00 % | | |-OTA|TatII: 0 0 bp 0.00 % | | | |-OTA|TatII-like: 0 0 bp 0.00 % | | |-OTA|TatIII: 0 0 bp 0.00 % | | | |-OTA|TatIII-like: 0 0 bp 0.00 % | | |-OTA|Tat|Ogre: 0 0 bp 0.00 % | | | |-OTA|Tat|Ogre-like: 0 0 bp 0.00 % | | |-OTA|Tat|Retand: 357 612909 bp 0.51 % | | | |-OTA|Tat|Retlike: 828 949896 bp 0.79 % | | | |-chromovirus | |-Chlamyvir: 0 0 bp 0.00 % | | |-Chlamyvir-like: 0 0 bp 0.00 % | |-Tcn1: 0 0 bp 0.00 % | | |-Tcn1-like: 0 0 bp 0.00 % | |-chromo-outgroup: 0 0 bp 0.00 % | | |-chr-outg-like: 0 0 bp 0.00 % | |-CRM: 93 95156 bp 0.08 % | | |-CRM-like: 443 185112 bp 0.15 % | |-Galadriel: 0 0 bp 0.00 % | | |-Galadriel-like: 0 0 bp 0.00 % | |-Tekay: 264 522115 bp 0.44 % | | |-Tekay-like: 0 0 bp 0.00 % | |-Reina: 216 222402 bp 0.19 % | | |-Reina-like: 0 0 bp 0.00 % | |-chromo-unclass: 0 0 bp 0.00 % | |-chromo-un-like: 0 0 bp 0.00 % | |-Class I others: 0 0 bp 0.00 % |-Penelope: 0 0 bp 0.00 % |-DIRS: 0 0 bp 0.00 % |-Pararetrovirus: 0 0 bp 0.00 % -Class I Unknown: 0 0 bp 0.00 % -----------------------------Class II:Results-------------------------- Class II Total: 16481 6741063 bp 5.63 % ----------------------------------------------------------------------- -Subclass_1 | |-TIRs: 3144 1781426 bp 1.49 % | |-non-autonomous | | |-MITEs: 1108 618730 bp 0.52 % | |-autonomous | |-EnSpm_CACTA: 507 364577 bp 0.30 % | |-hAT: 565 221915 bp 0.19 % | |-Kolobok: 0 0 bp 0.00 % | |-Merlin: 0 0 bp 0.00 % | |-MuDR_Mutator: 698 442149 bp 0.37 % | |-Novosib: 0 0 bp 0.00 % | |-P element: 0 0 bp 0.00 % | |-PIF_Harbinger: 266 134055 bp 0.11 % | |-PiggyBac: 0 0 bp 0.00 % | |-Sola1: 0 0 bp 0.00 % | |-Sola2: 0 0 bp 0.00 % | |-Tc1_Mariner: 0 0 bp 0.00 % -Subclass_2 |-RC/Helitron: 13337 4959637 bp 4.14 % |-Helitron-Auto: 419 384542 bp 0.32 % |-Helitron-Non-auto: 12918 4575095 bp 3.82 % -Class II Unknown: 0 0 bp 0.00 % ----------------------------------------------------------------------- -Unclassified: 10859 3282898 bp 2.74 % ----------------------------------------------------------------------- ======================================================================= * most repeats fragmented by insertions or deletions have been counted as one element The query species was assumed to be viridiplantae RepeatMasker version 4.1.1 , quick mode run with rmblastn version 2.10.0+ Plant TEs classification based on Orozco-Arias et al.,2019 =======================================================================