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Table 4 Proportions of synonymous sites (S%) and estimates of Ka, Ks and ω

From: γ-MYN: a new algorithm for estimating Ka and Ks with consideration of variable substitution rates

Method

κR - κY > 0.4

κR - κY < -0.4

R - κY| ≤ 0.4

 

S%

Ka

Ks

ω

S%

Ka

Ks

ω

S%

Ka

Ks

ω

human-dog orthologs

GY

24.80%

0.0691

0.4936

0.1483

24.72%

0.0723

0.4676

0.1639

24.34%

0.0874

0.5347

0.1704

YN

25.09%

0.0674

0.4900

0.1531

24.96%

0.0700

0.4750

0.1695

24.27%

0.0928

0.5412

0.1746

MYN

23.88%

0.0664

0.5748

0.1361

26.16%

0.0711

0.4495

0.1800

24.22%

0.0939

0.5596

0.1727

γ-MYN

23.93%

0.0681

0.6462

0.1266

26.28%

0.0733

0.4962

0.1713

24.29%

0.0962

0.6227

0.1620

human-mouse orthologs

GY

25.86%

0.0901

0.7163

0.1291

25.65%

0.0961

0.7118

0.1390

25.52%

0.1128

0.7422

0.1543

YN

26.07%

0.0877

0.7002

0.1344

25.69%

0.0923

0.6904

0.1465

25.31%

0.1091

0.7439

0.1564

MYN

24.83%

0.0863

0.8321

0.1157

26.93%

0.0940

0.6527

0.1566

25.24%

0.1090

0.7734

0.1526

γ-MYN

24.91%

0.0894

0.9501

0.1058

27.10%

0.0980

0.7390

0.1468

25.35%

0.1140

0.8934

0.1398

human-chimp orthologs

GY

25.47%

0.0273

0.0663

0.5118

25.18%

0.0262

0.0579

0.5685

25.98%

0.0228

0.0420

0.4364

YN

25.79%

0.0302

0.0646

0.5237

25.33%

0.0297

0.0564

0.5790

23.81%

0.0506

0.0595

0.3893

MYN

24.34%

0.0299

0.0719

0.4792

26.87%

0.0307

0.0516

0.6312

23.72%

0.0493

0.0601

0.3863

γ-MYN

24.34%

0.0305

0.0741

0.4768

26.89%

0.0324

0.0530

0.6309

23.72%

0.0515

0.0626

0.3847