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Table 3 Divergence between S. cerevisiae and S. paradoxus at sites of divergence between S. mikatae and S. bayanus.1

From: Extensive parallelism in protein evolution

 

Synonymous

Nonsynonymous

 

Overall1

Parallel2

Overall3

Coincident

    

Parallel4

Divergent5

     

Same site

Different site

Pairs of nucleotides

      

   AC

0.055

0.061

0.0037 (6.8%)

0.035 (132, 57.2%)

0.018 (217, 29.6%)

0.012 (223, 20.0%)

   AG

0.198

0.218

0.0189 (9.5%)

0.110 (1941, 50.5%)

0.070 (459, 31.9%)

0.054 (851, 24.6%)

   AT

0.044

0.064

0.0029 (6.6%)

0.038 (116, 59.2%)

0.015 (158, 24.0%)

0.006 (107, 9.2%)

   CG

0.061

0.074

0.0053 (8.6%)

0.039 (117, 52.7%)

0.021 (214, 28.3%)

0.014 (129, 18.6%)

   CT

0.169

0.208

0.0090 (5.3%)

0.095 (476, 45.7%)

0.044 (249, 21.1%)

0.025 (310, 11.9%)

   GT

0.044

0.062

0.0025 (5.6%)

0.047 (76, 76.1%)

0.012 (143, 19.4%)

0.007 (64, 11.1%)

   Average

0.095

0.115

0.0070 (7.4%)

0.061 (2858, 53.0%)

0.030 (1440, 26.2%)

0.020 (1684, 17.1%)

Genes6

      

   Low d N

0.085

0.110

0.0029 (3.4%)

0.049 (403, 45.0%)

0.015 (135, 13.7%)

0.011 (161, 10.1%)

   Intermediate d N

0.101

0.117

0.0070 (6.9%)

0.062 (976, 52.6%)

0.027 (435, 23.0%)

0.018 (527, 15.2%)

   High d N

0.103

0.117

0.0128 (12.5%)

0.064 (1479, 54.3%)

0.038 (870, 32.1%)

0.024 (996, 20.3%)

Chemical distance between amino acids7

      

   1

0.095

0.115

0.0070 (7.4%)

0.060 (969, 52.7%)

0.016 (308, 13.7%)

0.019 (434, 16.2%)

   1.5 or 2

0.095

0.115

0.0070 (7.4%)

0.061 (1482, 53.0%)

0.032 (729, 27.9%)

0.018 (892, 15.4%)

   2.5 or 3

0.095

0.115

0.0070 (7.4%)

0.053 (407, 46.7%)

0.040 (403, 34.6%)

0.032 (358, 28.0%)

  1. 1This Table is analogous to Table 1.