Figure 1
From: Computing Ka and Ks with a consideration of unequal transitional substitutions
Percentage errors of estimated ω (= Ka/Ks) by YN and MYN when κ Y = 3.75, considering κ R varying from 1 to 10. The percentage error was calculated by the formula 100% × [(estimated value) - (expected value)]/(expected value). The canonical genetic code was used for simulated sequences with 2 million codons. Three sets of codon frequencies were used: equal (A to C), human (D to F) calculated from human protein-coding genes, and rice (G to I) calculated from rice protein-coding genes. ω = 0.3 (A, D, G), ω = 1 (B, E, H), and ω = 3 (C, F, I) were considered as representative values for purifying selection, neutral mutation and positive selection, respectively.