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Table 3 Repetitive content in consensus sequences

From: Combined methylation mapping of 5mC and 5hmC during early embryonic stages in bovine

  Blastocyst embryos Elongation embryos
Method Me-RDA HMe-RDA HELP cocktail Me-RDA HMe-RDA HELP cocktail
Msp/Hpa FspBI/BfaI Msp/Hpa FspBI/BfaI
Number of sequences with repetitive contenta 29 777 19 996 27 055 21 490 11 058 26 453
(89.9%) (68.0%) (85.6%) (83.9%) (44.3%) (63.3%)
SINEb 0.6% 9.4% 47.2% 0.3% 6.4% 30.1%
LINEb 0.3% 30.9% 17.3% 0.1% 10.0% 10.5%
LTRb 4.6% 8.4% 2.1% 0.4% 5.4% 4.5%
Satellitesb 87.7% 13.9% 3.9% 91.7% 25.6% 3.4%
Totalbc 93.4% 63.3% 71.9% 92.6% 47.9% 50.0%
  1. Repetitive content as identified by RepeatMasker. aNumber of sequences (percentage of total) within which repetitive content was found. bPercentage of the total number of bases within the consensus sequences of the given library. cAs a reference, annotated repetitive elements cover 48.1% of the bovine genome.