Divergence index (fundamental departure/mean) out of Ka and you will Ks calculated in line with the eight different ways from the 12 vertebrate variety

Throughout the boxplots, all the way down quantile, median, and you will top quantile had been portrayed from the boxes. Suggest beliefs was in fact represented inside the dots. Outliers was indeed got rid of to really make the plot quick. The quantity requirements towards vertebrate varieties try: step one, chimp; 2, orangutan; step three, macaque; cuatro, horse; 5, dog; 6, cow; eight, guinea-pig; 8, mouse; nine, rat; 10, opossum; 11, platypus; and 12, poultry.

The brand new portion of shared genetics out-of Ka, Ks and you may Ka/Ks centered on GY compared with other 7 steps in terms of cut-regarding (An excellent, B), strategy (C, D), and you can varieties (Elizabeth, F). Outliers was in fact got rid of to help make the plots quick. The quantity codes into the species are exactly the same given that exactly what for the Shape step one.

Which impact ideal that the Ka thinking haven’t reached saturation but really

The methods used in this study cover a wide range of mutation models with different complexities. NG gives equal weight to every sequence variation path and LWL divides the mutation sites into three categories-non-degenerate, two-fold, and four-fold sites-and assigns fixed weights to synonymous and nonsynonymous sites for the two-fold degenerate sites . LPB adopts a flexible ratio of transitional to transversional substitutions to handle the two-fold sites [26, 27]. Continue reading Divergence index (fundamental departure/mean) out of Ka and you will Ks calculated in line with the eight different ways from the 12 vertebrate variety