Table 6 Detailed classification of repeat sequences.

From: The sequencing and de novo assembly of the Larimichthys crocea genome using PacBio and Hi-C technologies

Type

De novo

TE proteins

Combined TEs

Length (Mbp)

Proportion in Genome (%)

Length (Mbp)

Proportion in Genome (%)

Length (Mbp)

Proportion in Genome (%)

DNA

66.39

9.17

5.58

0.77

69.11

9.54

LINE

45.38

6.26

14.50

2.00

51.37

7.09

SINE

3.45

0.48

0.00

0.00

3.45

0.48

LTR

51.19

7.07

9.51

1.31

52.41

7.24

Simple Repeat

16.86

2.33

0.00

0.00

16.86

2.33

Unknown

11.85

1.64

0.00

0.00

11.85

1.64

Total

183.50

25.33

29.51

4.07

189.27

26.13

  1. Note: “De novo” represents the de novo identified transposable elements using RepeatMasker, RepeatModeler, RepeatScout, and LTR_FINDER. “TE proteins” indicates homologous transposable elements in Repbase identified with RepeatProteinMask, while “Combined TEs” refers to the combined results of transposable elements identified in these two ways. “Unknown” represents transposable elements that could not be classified by RepeatMasker.
Back to article page