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Table 1 Percent repetitive element content of reduced representation libraries.

From: SNP discovery in swine by reduced representation and high throughput pyrosequencing

Library1

Restriction Enzyme

Site

SINEs2

LINEs

LTR

DNA

Total

Centromeric Repeats3

GSS

Sheared

random

11.30

16.14

2.80

1.51

31.75

0.00

pRRL1

Alu I

AG|CT

10.21

15.63

2.46

3.16

31.46

0.00

pRRL2

Hae III

GG|CC

13.19

11.33

3.11

1.79

29.42

0.00

pRRL3

Bst U I

CG|CG

1.98

0.40

0.03

0.42

2.83

23.83

pRRL4

Dra I

TTT|AAA

32.04

4.85

1.67

1.09

39.65

0.00

pRRL5

Pvu II

CAG|CTG

20.99

4.91

1.71

1.25

28.86

6.18

  1. 1 GSS refers to genome survey sequence and values were obtained from Wernersson et al., 2005 [14].
  2. 2 Values are given as percent of total. SINEs refers to short interspersed elements porcine SINE elements and MIRs; LINEs refers to LINE1, LINE 2, L3/CR1 and RTE elements; LTR refers to long terminal repeats MaLRs, and ERVL; DNA refers to MER1 and MER2-type elements. Total refers to percent of repetitive content identified by RepeatMasker.
  3. 3Values in the centromeric repeat column represent percent of sequences that contain a centromeric repeat and not percent of sequence content.
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BMC Genomic Data

ISSN: 2730-6844

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