Table 1

Frequency of Alu-derived sequences bound by HNF4α in Alu repeats and the human genome.

Sequence

PBM score

# in Alus

# in hg18

%


TGACCTCGTGATC

0.62

101229

101259

99.97

TGAACCCGGGAGG

0.76

122111

122158

99.96

TGAACCTGGGAGG

0.73

126196

126368

99.86

TGACCTCATGATC

0.68

41447

41545

99.76

TGAACCCGGGAGA

0.61

5700

5716

99.72

TGGGGTTTCACCG

0.70

13385

13428

99.68

TGAACCCGGAAGG

0.69

4520

4535

99.67

TGACCTTGTGATC

0.64

40637

40786

99.63

TGAACTCGGGAGG

0.82

6783

6810

99.60

GCACTTTGGGAGG

0.84

469851

471728

99.60

TGAATCCGGGAGG

0.72

5765

5789

99.59

ACACTTTGGGAGG

0.69

38828

38993

99.58

GCACTTCGGGAGG

0.87

8683

8721

99.56

TGACCTCGCGATC

0.77

775

779

99.49

TGAACCCGAGAGG

0.62

4133

4156

99.45

GTACTTTGGGAGG

0.63

15294

15386

99.40

TGAACCCGGGGGG

9.02

1319

1328

99.32

TGACCTTGCGATC

0.73

411

414

99.28

TGACCTCGTGATT

0.63

2863

2888

99.13

GCACTCTGGGAGG

0.74

13202

13342

98.95

TGAGCCCGGGAGG

0.71

5450

5517

98.79

TGAGCCTGGGAGG

0.69

19616

19895

98.60

TGACCTCGTGACC

0.67

1070

1088

98.35

TGACCTCGTGACC

0.68

1070

1088

98.35

TGAACGCGGGAGG

0.72

642

653

98.32

TGACCTCAAATGA

0.63

8625

8779

98.25


PBM score is the average relative intensity of quadruplicate spots across four arrays. Score >.612 indicates significant binding.

Bolotin et al. BMC Genomics 2011 12:560   doi:10.1186/1471-2164-12-560

Open Data