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Table 8 Sitewise substitution rates in TAED lineages sorted by selective pressure and structural features

From: Characterizing lineage-specific evolution and the processes driving genomic diversification in chordates

 

Positively Selected Lineages (dN/dS > 1)

Negatively Selected Lineages (dN/dS < 0.5)

Substituted Sites

p

All Sites

Substituted Sites

p

All Sites

Helix

30.2826%

< 0.0001

34.0597%

35.2377%

< 0.0001

36.6327%

Exposed

17.1142%

0.0002

16.4580%

20.2511%

< 0.0001

17.3397%

Buried

13.1684%

< 0.0001

17.6017%

14.9866%

< 0.0001

19.2929%

α-Helix

26.1346%

< 0.0001

30.1108%

31.1229%

< 0.0001

32.7617%

Exposed

14.3764%

0.1659

14.1740%

17.5250%

< 0.0001

15.1730%

Buried

11.7582%

< 0.0001

15.9368%

13.5979%

< 0.0001

17.5887%

310 Helix

3.4956%

0.0098

3.3039%

3.5115%

< 0.0001

3.2213%

Exposed

2.3597%

< 0.0001

2.0045%

2.4163%

< 0.0001

1.8907%

Buried

1.1359%

0.0004

1.2994%

1.0952%

< 0.0001

1.3306%

Ï€-Helix

0.6524%

0.8047

0.6449%

0.6033%

< 0.0001

0.6497%

Exposed

0.3780%

< 0.0001

0.2794%

0.3098%

< 0.0001

0.2761%

Buried

0.2743%

0.0005

0.3655%

0.2935%

< 0.0001

0.3736%

β-Sheet

23.2104%

< 0.0001

21.7820%

18.2981%

< 0.0001

19.8385%

Exposed

8.9360%

< 0.0001

7.1998%

7.3255%

< 0.0001

6.2661%

Buried

14.2744%

0.0361

14.5822%

10.9726%

< 0.0001

13.5724%

β-Bridge

1.1095%

0.7913

1.0984%

0.9888%

< 0.0001

1.0382%

Exposed

0.5644%

0.0004

0.4641%

0.4876%

< 0.0001

0.4194%

Buried

0.5451%

0.0081

0.6343%

0.5012%

< 0.0001

0.6188%

Turn

12.0729%

< 0.0001

11.0540%

12.3561%

< 0.0001

11.0859%

Exposed

9.7554%

< 0.0001

8.3283%

9.9588%

< 0.0001

8.1517%

Buried

2.3175%

< 0.0001

2.7257%

2.3973%

< 0.0001

2.9342%

Bend

10.4763%

< 0.0001

9.7416%

10.2628%

< 0.0001

9.6989%

Exposed

7.9179%

< 0.0001

6.8552%

7.8004%

< 0.0001

6.6547%

Buried

2.5584%

< 0.0001

2.8864%

2.4624%

< 0.0001

3.0443%

Coil

22.8482%

0.0006

22.2643%

22.8565%

< 0.0001

21.7058%

Exposed

15.2151%

< 0.0001

13.2976%

15.3522%

< 0.0001

12.7858%

Buried

7.6331%

< 0.0001

8.9667%

7.5044%

< 0.0001

8.9201%

Buried (All Sites)

40.4969%

< 0.0001

47.3970%

38.8245%

< 0.0001

48.3826%

Exposed (All Sites)

59.5031%

< 0.0001

52.6030%

61.1755%

< 0.0001

51.6174%

  1. The distribution of substituted sites by secondary structure and solvent accessibility binned by the nautre of selection are shown. Bolded items are significant (p < 0.00167 after multiple comparisons correction) based on parametric bootstrapping, n = 20000
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BMC Ecology and Evolution

ISSN: 2730-7182

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