Table 8: Results obtained with RepeatMasker for the cork oak draft genome.

From: The draft genome sequence of cork oak

  Number of Elements Length Occupied (bp) Percentage of Sequence (%)
Retroelements 96,642 72,329,781 7.59
SINEs: 596 71,956 0.01
Penelope 3 438 0.00
LINEs: 24,465 12,440,942 1.31
CRE/SLACS 35 1,803 0.00
L2/CR1/Rex 0 0 0.00
R1/LOA/Jockey 0 0 0.00
R2/R4/NeSL 0 0 0.00
RTE/Bov-B 2,551 734,240 0.08
L1/CIN4 21,858 11,703,615 1.23
LTR elements: 71,581 59,816,883 6.27
BEL/Pao 0 0 0.00
Ty1/Copia 31,107 25,406,691 2.67
Gypsy/DIRS1 36,363 32,397,852 3.40
Retroviral 0 0 0.00
DNA transposons 32,632 7,066,773 0.74
Hobo-Activator 12,038 3,473,326 0.36
Tc1-IS630-Pogo 280 28,138 0.00
En-Spm 0 0 0.00
MuDR-IS905 0 0 0.00
PiggyBac 0 0 0.00
Tourist/Harbinger 2,785 708,244 0.07
Other (Mirage P-element, P-element, Transib) 0 0 0.00
Rolling-circles 0 0 0.00
Unclassified 4,448 1,927,308 0.20
Total interspersed repeats   81,323,862 8.53
Small RNA 1,303 233,092 0.02
Satellites 321 36,450 0.00
Simple repeats 700,496 25,912,290 2.72
Low complexity 127,202 6,580,532 0.69
  1. The whole set of scaffolds (23,344) was used in the run, with a total sequence length of 953.3 Mb.