Table 3

Repeats derived from de novo and homology-based predictions in S. indicum

Repeat type

Repeat number

Length occupied (bp)

Percentage of sequences


Retroelements

18,322

5,811,328

1.98

SINEs

8

328

0.00

LINEs

2,266

374,709

0.13

LTR elements

16,048

5,436,291

1.85

DNA transposons

3,349

571,933

0.19

hobo-Activator

305

43,075

0.01

Tc1-IS630-Pogo

1,232

155,117

0.05

En-Spm

96

55,227

0.02

MuDR-IS905

2

347

0.00

Total bases masked

16,852,950

5.74

Unclassified repeatsa

835,752

92,380,494

31.65

Total interspersed repeats

92,380,494

31.65


aUnclassified repeats refer to predicted repeats (sequences in the de novo repeats library) that cannot be classified by RepeatMasker.

Zhang et al. Genome Biology 2013 14:401   doi:10.1186/gb-2013-14-1-401