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Table 1 Characterization of repeat types by RepeatMasker*

From: Fosmid library end sequencing reveals a rarely known genome structure of marine shrimp Penaeus monodon

  D. melanogaster A. gambiae
Type # Hits Length (bp) % Bases # Hits Length (bp) % Bases
(1) Interspersed repeats       
   (i) Retrotransposon 380 45,036 0.405% 870 94,532 0.851%
Non-LTR elements 154 14,584 0.131% 151 16,570 0.149%
L2/CR1/Rex 1 67 0.001% 28 1,817 0.016%
R1/LOA/Jockey 55 4,375 0.039% 122 14,723 0.132%
RTE/Bov-B - - - 1 30 0.000%
LTR elements 226 30,452 0.274% 719 77,962 0.701%
Ty1/Copia 3 238 0.002% - - -
Gypsy/DIRS1 181 27,142 0.244% 718 77,743 0.699%
   (ii) DNA transposons 53 4,302 0.039% 154 14,817 0.133%
hobo-Activator 3 363 0.003% - - -
Others 40 3,364 0.030% 40 2,324 0.021%
   (iii) Unclassified 48 4,816 0.043% 5 309 0.003%
Total interspersed repeats 481 54,154 0.487% 1,029 109,658 0.987%
(2) Small RNAs 1,351 422,537 3.802% 1,274 414,435 3.729%
(3) Simple repeats 10,282 858,898 7.728% 9,756 807,927 7.269%
(4) Low complexity repeats 4,258 386,684 3.479% 4,257 387,159 3.483%
Total repetitive sequences   1,721,824 15.491%   1,718,177 15.458%
  1. *The repeat databases of D. melanogaster and A. gambiae were used.