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Table 4 Repetitive elements within the bovine Type I IFN sub-loci.

From: Characterization of the bovine type I IFN locus: rearrangements, expansions, and novel subfamilies

 

Sub-locus 1

Sub-locus 2

SINEs:

15.29%

15.68%

   Alu/B1

0.00%

0.00%

   MIRs

0.51%

0.81%

LINEs:

17.74%

11.23%

   LINE1

10.33%

2.20%

   LINE2

0.44%

0.29%

   L3/CR1

0.04%

0.00%

   RTE

6.93%

8.73%

LTR elements:

4.01%

2.75%

   MaLRs

0.89%

0.98%

   ERVL

0.12%

0.03%

   ERV classI

0.79%

0.22%

   ERV classII

0.00%

0.00%

DNA elements:

2.36%

2.68%

   MER1_type

1.72%

2.45%

   MER2_type

0.45%

0.00%

Unclassified:

0.00%

0.00%

Total interspersed repeats:

39.40%

32.35%

Small RNA:

0.24%

0.40%

  1. The percentage of repetitive elements for the Type I IFN sub-loci was calculated in RepeatMasker 3.1.9. The length of nucleotide sequence encompassing the repetitive element divided by the length of the total nucleotide sequence for either sub-locus 1 or sub-locus 2 was used to calculate the percentage shown in each column. Sub-locus 1 has a higher proportion of LINE1 and LTR elements than sub-locus 2 resulting in a higher total number of interspersed repeats within sub-locus.
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BMC Genomics

ISSN: 1471-2164

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