Table 3

Top 50 single-substitution patterns 2-5 bp sorted by context bias

Pattern

Context bias

95% Conf. Int.

Rel. abund.

95% Conf. Int.


1. CG→TG (CG→CA)

2.926e-03

2.907e-03 - 2.945e-03

7.5809

7.5581 - 7.6049

2. AT→GT (AT→AC)

2.148e-04

2.125e-04 - 2.173e-04

1.5444

1.5401 - 1.5492

3. TG→CG (CA→CG)

1.372e-04

1.351e-04 - 1.392e-04

1.3861

1.3816 - 1.3906

4. TG→TA (CA→TA)

-1.025e-04

-1.021e-04 - -1.029e-04

0.6367

0.6341 - 0.6391

5. CT→TT (AG→AA)

-9.985e-05

-9.947e-05 - -1.002e-04

0.6136

0.6110 - 0.6161

6. TNG→CNG (CNA→CNG)

7.681e-05

7.571e-05 - 7.790e-05

1.5309

1.5252 - 1.5365

7. TT→TC (AA→GA)

-7.532e-05

-7.497e-05 - -7.568e-05

0.6385

0.6355 - 0.6413

8. GT→AT (AC→AT)

6.859e-05

6.691e-05 - 7.038e-05

1.1903

1.1868 - 1.1943

9. TC→TT (GA→AA)

-6.753e-05

-6.697e-05 - -6.808e-05

0.7425

0.7399 - 0.7454

10. GG→GA (CC→TC)

-6.618e-05

-6.573e-05 - -6.664e-05

0.7081

0.7049 - 0.7114

11. TT→CT (AA→AG)

-5.828e-05

-5.770e-05 - -5.884e-05

0.7672

0.7641 - 0.7703

12. TC→CC (GA→GG)

-4.745e-05

-4.718e-05 - -4.771e-05

0.6333

0.6296 - 0.6370

13. CG→CT (CG→AG)

3.809e-05

3.676e-05 - 3.950e-05

2.2765

2.2495 - 2.3054

14. CT→CC (AG→GG)

-3.210e-05

-3.144e-05 - -3.275e-05

0.8438

0.8402 - 0.8479

15. GNG→ANG (CNC→CNT)

2.937e-05

2.857e-05 - 3.014e-05

1.1720

1.1682 - 1.1759

16. CG→GG (CG→CC)

2.462e-05

2.358e-05 - 2.564e-05

1.9887

1.9605 - 2.0182

17. AT→TT (AT→AA)

2.382e-05

2.294e-05 - 2.468e-05

1.3335

1.3244 - 1.3433

18. TA→TG (TA→CA)

2.340e-05

2.218e-05 - 2.455e-05

1.0990

1.0942 - 1.1039

19. TNA→TNG (TNA→CNA)

-2.243e-05

-2.214e-05 - -2.270e-05

0.7903

0.7866 - 0.7938

20. GG→AG (CC→CT)

2.236e-05

2.105e-05 - 2.373e-05

1.0655

1.0620 - 1.0692

21. GNG→GNA (CNC→TNC)

1.910e-05

1.839e-05 - 1.976e-05

1.1173

1.1134 - 1.1217

22. TNG→TNA (CNA→TNA)

-1.873e-05

-1.833e-05 - -1.913e-05

0.8679

0.8648 - 0.8713

23. TNT→CNT (ANA→ANG)

-1.844e-05

-1.802e-05 - -1.887e-05

0.8750

0.8715 - 0.8783

24. CNT→CNC (ANG→GNG)

1.733e-05

1.670e-05 - 1.801e-05

1.1524

1.1478 - 1.1575

25. TG→TC (CA→GA)

-1.692e-05

-1.660e-05 - -1.721e-05

0.7668

0.7612 - 0.7723

26. GNT→ANT (ANC→ANT)

-1.673e-05

-1.630e-05 - -1.714e-05

0.8848

0.8814 - 0.8884

27. GT→TT (AC→AA)

1.630e-05

1.552e-05 - 1.709e-05

1.2006

1.1920 - 1.2093

28. TG→GG (CA→CC)

1.610e-05

1.530e-05 - 1.682e-05

1.2087

1.1999 - 1.2166

29. CT→AT (AG→AT)

-1.535e-05

-1.500e-05 - -1.568e-05

0.7949

0.7894 - 0.8006

30. TGG→CGG (CCA→CCG)

-1.482e-05

-1.468e-05 - -1.496e-05

0.7151

0.7116 - 0.7185

31. TA→TT (TA→AA)

1.343e-05

1.273e-05 - 1.411e-05

1.2402

1.2297 - 1.2504

32. TC→TA (GA→TA)

-1.182e-05

-1.149e-05 - -1.214e-05

0.8167

0.8109 - 0.8236

33. GNT→TNT (ANC→ANA)

1.175e-05

1.135e-05 - 1.223e-05

1.2551

1.2474 - 1.2636

34. TTG→CTG (CAA→CAG)

1.173e-05

1.136e-05 - 1.208e-05

1.2408

1.2347 - 1.2469

35. TT→AT (AA→AT)

-1.172e-05

-1.147e-05 - -1.200e-05

0.7803

0.7727 - 0.7868

36. TC→TG (GA→CA)

1.163e-05

1.093e-05 - 1.239e-05

1.1358

1.1279 - 1.1433

37. TNC→TNT (GNA→ANA)

-1.152e-05

-1.099e-05 - -1.204e-05

0.9305

0.9273 - 0.9337

38. GT→GC (AC→GC)

1.090e-05

9.893e-06 - 1.202e-05

1.0588

1.0539 - 1.0639

39. TT→TG (AA→CA)

1.033e-05

9.639e-06 - 1.105e-05

1.1141

1.1073 - 1.1212

40. GGC→GGT (GCC→ACC)

9.916e-06

9.571e-06 - 1.026e-05

1.2075

1.2018 - 1.2140

41. GC→GG (GC→CC)

-9.655e-06

-9.383e-06 - -9.932e-06

0.7853

0.7772 - 0.7938

42. CT→GT (AG→AC)

9.557e-06

8.870e-06 - 1.027e-05

1.0969

1.0904 - 1.1033

43. TT→TA (AA→TA)

-9.479e-06

-9.164e-06 - -9.822e-06

0.8338

0.8268 - 0.8413

44. TC→GC (GA→GC)

-9.314e-06

-9.093e-06 - -9.545e-06

0.7587

0.7509 - 0.7677

45. GNG→CNG (CNC→CNG)

9.304e-06

8.933e-06 - 9.707e-06

1.2409

1.2320 - 1.2497

46. GNNG→GNNA (CNNC→TNNC)

9.232e-06

8.864e-06 - 9.596e-06

1.1145

1.1104 - 1.1185

47. GG→TG (CC→CA)

-8.903e-06

-8.530e-06 - -9.274e-06

0.8544

0.8467 - 0.8619

48. TNNG→TNNA (CNNA→TNNA)

-8.708e-06

-8.482e-06 - -8.924e-06

0.8822

0.8787 - 0.8856

49. TG→TT (CA→AA)

-8.545e-06

-8.105e-06 - -9.015e-06

0.9046

0.8987 - 0.9102

50. GG→CG (CC→CG)

-7.914e-06

-7.543e-06 - -8.279e-06

0.8664

0.8596 - 0.8745


Nevarez et al. BMC Bioinformatics 2010 11:462   doi:10.1186/1471-2105-11-462

Open Data