Table 2 S% Estimates under different negative selections based on YN, MYN, and γ-MYN
From: γ-MYN: a new algorithm for estimating Ka and Ks with consideration of variable substitution rates
Human Codon Frequencies | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
ω | α | Method | S (%) | |||||||||
κR = 1 | κR = 2 | κR = 3 | κR = 4 | κR = 5 | κR = 6 | κR = 7 | κR = 8 | κR = 9 | κR = 10 | |||
0.1 | 4.8 | YN | 25.92 | 27.09 | 27.95 | 28.60 | 29.18 | 29.63 | 29.99 | 30.28 | 30.57 | 30.77 |
MYN | 29.03 | 28.88 | 28.78 | 28.66 | 28.56 | 28.50 | 28.42 | 28.34 | 28.29 | 28.16 | ||
γ-MYN | 29.12 | 28.94 | 28.83 | 28.70 | 28.59 | 28.53 | 28.45 | 28.36 | 28.31 | 28.18 | ||
0.2 | 4 | YN | 25.91 | 27.07 | 27.92 | 28.62 | 29.22 | 29.66 | 30.04 | 30.36 | 30.65 | 30.87 |
MYN | 29.00 | 28.87 | 28.69 | 28.57 | 28.53 | 28.43 | 28.30 | 28.26 | 28.21 | 28.15 | ||
γ-MYN | 29.10 | 28.95 | 28.75 | 28.62 | 28.57 | 28.47 | 28.33 | 28.28 | 28.23 | 28.16 | ||
0.3 | 4 | YN | 25.90 | 27.06 | 27.94 | 28.65 | 29.19 | 29.63 | 30.04 | 30.38 | 30.65 | 30.90 |
MYN | 29.05 | 28.87 | 28.70 | 28.57 | 28.43 | 28.33 | 28.26 | 28.19 | 28.14 | 28.06 | ||
γ-MYN | 29.14 | 28.95 | 28.76 | 28.61 | 28.47 | 28.36 | 28.28 | 28.21 | 28.15 | 28.08 | ||
0.4 | 3 | YN | 25.85 | 27.06 | 27.96 | 28.65 | 29.20 | 29.66 | 30.05 | 30.37 | 30.64 | 30.90 |
MYN | 28.96 | 28.84 | 28.70 | 28.55 | 28.44 | 28.35 | 28.27 | 28.22 | 28.16 | 28.10 | ||
γ-MYN | 29.08 | 28.94 | 28.78 | 28.62 | 28.50 | 28.40 | 28.31 | 28.25 | 28.18 | 28.11 | ||
0.5 | 2.5 | YN | 25.88 | 27.05 | 27.95 | 28.66 | 29.23 | 29.66 | 30.04 | 30.35 | 30.64 | 30.86 |
MYN | 28.97 | 28.81 | 28.68 | 28.56 | 28.47 | 28.36 | 28.29 | 28.18 | 28.15 | 28.05 | ||
γ-MYN | 29.12 | 28.93 | 28.77 | 28.63 | 28.53 | 28.41 | 28.33 | 28.21 | 28.17 | 28.07 | ||
0.6 | 2 | YN | 25.89 | 27.05 | 27.92 | 28.66 | 29.20 | 29.66 | 30.02 | 30.34 | 30.61 | 30.88 |
MYN | 28.99 | 28.81 | 28.64 | 28.58 | 28.45 | 28.37 | 28.27 | 28.18 | 28.10 | 28.09 | ||
γ-MYN | 29.19 | 28.96 | 28.77 | 28.67 | 28.52 | 28.43 | 28.31 | 28.22 | 28.13 | 28.12 | ||
0.7 | 1.5 | YN | 25.87 | 27.05 | 27.93 | 28.63 | 29.21 | 29.65 | 30.02 | 30.33 | 30.63 | 30.86 |
MYN | 28.94 | 28.79 | 28.65 | 28.54 | 28.47 | 28.36 | 28.27 | 28.16 | 28.12 | 28.05 | ||
γ-MYN | 29.21 | 28.99 | 28.82 | 28.67 | 28.57 | 28.44 | 28.33 | 28.21 | 28.16 | 28.08 | ||
0.8 | 1.5 | YN | 25.86 | 27.05 | 27.96 | 28.62 | 29.20 | 29.65 | 30.02 | 30.33 | 30.61 | 30.86 |
MYN | 28.93 | 28.79 | 28.69 | 28.52 | 28.48 | 28.37 | 28.27 | 28.17 | 28.11 | 28.05 | ||
γ-MYN | 29.19 | 29.00 | 28.86 | 28.65 | 28.58 | 28.45 | 28.34 | 28.22 | 28.14 | 28.08 | ||
0.9 | 1.5 | YN | 25.87 | 27.06 | 27.96 | 28.65 | 29.20 | 29.66 | 30.01 | 30.33 | 30.61 | 30.85 |
MYN | 28.91 | 28.80 | 28.67 | 28.57 | 28.47 | 28.38 | 28.27 | 28.17 | 28.08 | 28.04 | ||
γ-MYN | 29.18 | 29.01 | 28.84 | 28.69 | 28.58 | 28.46 | 28.34 | 28.22 | 28.12 | 28.07 | ||