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Table 5 Genes with branches where ω > 1 based on the free ratio model.

From: Comparative analysis of protein coding sequences from human, mouse and the domesticated pig

  

Omega

Number of substitutions

Significance

Gene

L

Pig

Mouse

Human

P(N)

P(S)

M(N)

M(S)

H(N)

H(S)

ω > 1

NM_001866

80

2.130

0.434

0.535

9.8

1.9

11.5

11.0

12.0

9.3

0.4775

NM_004085

97

1.088

0.053

0.000

2.0

0.5

4.9

24.1

0.0

8.8

0.9863

NM_004549

122

0.570

0.276

1.615

15.2

10.2

25.7

35.5

28.9

6.8

0.4229

NM_004891

65

0.092

0.116

2.560

2.9

11.6

8.1

25.1

10.1

1.4

0.5318

NM_006607

187

0.261

0.281

2.117

24.6

38.0

54.7

78.4

31.0

5.9

0.3625

NM_012198

216

0.341

0.073

1.849

24.9

26.5

18.3

91.6

29.4

5.8

0.3888

NM_017425

147

0.594

0.424

1.110

33.5

18.7

39.3

30.8

21.2

6.3

0.8750

NM_022978

60

0.228

0.143

1.102

2.8

4.4

3.3

8.0

38.9

12.5

0.8547

NM_031268

72

1.307

1.009

2.307

5.5

1.3

5.6

1.8

8.2

1.1

0.4009

NM_032353

97

0.539

2.100

0.964

5.71

4.3

22.0

4.3

7.1

3.0

0.1606

NM_032731

123

1.576

0.299

0.146

12.5

2.9

27.9

33.6

5.6

13.8

0.6854

XM_003044a

118

1.022

0.172

0.042

22.1

9.1

21.7

53.1

1.6

15.6

0.9743

XM_016532

155

0.000

0.125

1.193

0.0

34.0

16.0

49.0

11.4

3.6

0.8863

XM_041680a

168

0.415

0.186

1.079

29.4

25.5

33.1

64.0

6.7

2.2

0.9673

XM_062742a

110

0.000

0.011

1.661

0.0

19.0

1.0

36.4

22.9

5.4

0.5119

XM_069411

187

0.085

0.058

1.108

3.7

15.9

5.5

34.9

119.9

39.6

0.6943

XM_092681

81

0.187

0.040

1.167

5.3

10.0

3.0

26.0

15.9

4.8

0.8551

XM_165930a

102

∞

2.061

0.691

24.7

0.0

32.9

5.1

10.2

4.7

0.0020*

XM_166695a

190

0.235

0.067

1.183

19.8

30.9

12.5

38.3

79.6

24.7

0.6657

XM_168460a

74

2.672

0.848

1.085

10.4

2.3

23.9

15.6

6.6

3.4

0.9234

XM_172026a

72

0.035

0.042

2.213

0.9

8.8

2.1

17.3

30.1

4.7

0.2564

XM_172342a

143

0.000

0.032

1.320

0.0

3.0

2.0

20.3

27.3

6.6

0.6075

XM_172363a

77

0.139

0.132

1.077

8.7

21.0

8.6

22.0

14.4

4.5

0.9422

  1. Three-species alignments where one or more lineages have a dN/dS ratio larger than one. (Gene) Genbank accession number of the human gene. (L) Length of sequence alignment in codons, P(N) number of nonsynonymous substitutions in pig, P(S) number of synonymous substitutions in pig, M(N), M(S) and H(N), H(S) represents the mouse and human lineage respectively. (a)Possible pseudogenes in human lineage. (ω > 1) If more than one branch have ω > 1 only the significance of the branch with the largest value of ω is shown. (*) LRT (ω > 1) significant at 0.01 level.
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BMC Biology

ISSN: 1741-7007

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