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Table 6 RSCU distances of the host pairs calculated from the RSCU values for the abundant codons (RSCU ≥1.6) in the LT-Ag genes and two domains of PyVs

From: Codon usage patterns of LT-Ag genes in polyomaviruses from different host species

Region

Host pairs

RSCU distances witin host pairs for abundant codons (RSCU≥1.6)

TTT

TTA

ATT

TCT

CCT

ACT

GCT

AGA

AGG

Avg.

LT-Ag

A–F

0.082

0.165b

0.406

0.676

0.134

0.244

0.111

0.521

0.780

0.346

A–H

0.558a

1.593a

0.522

0.680a

0.301

0.764a

0.507

2.855a

0.749

0.948

A–M

0.435

1.169

0.512

0.334

0.257

0.471

0.204

2.355

0.645

0.709

A–P

0.460

1.335

0.572a

0.601

0.385a

0.707

0.279

2.731

0.785a

0.873

F–H

0.477

1.428

0.117

0.004b

0.167

0.520

0.618a

2.335

0.032

0.633

F–M

0.353

1.004

0.107

0.342

0.123

0.227

0.315

1.834

0.135

0.493

F–P

0.378

1.170

0.166

0.074

0.251

0.463

0.389

2.210

0.005b

0.567

H–M

0.123

0.424

0.010b

0.346

0.044b

0.293

0.303

0.501

0.104

0.239

H–P

0.098

0.259

0.050

0.079

0.083

0.057b

0.228

0.125b

0.036

0.113

M–P

0.025b

0.166

0.060

0.267

0.127

0.236

0.075b

0.376

0.140

0.164

DnaJ

A–H

1.682a

1.064

0.224b

1.896a

0.542

1.580

0.395

3.157a

0.151

1.188

A–M

0.511

0.662

0.561

1.566

0.669

1.668a

0.651

2.874

0.012b

1.019

A–P

1.476

1.230a

0.788a

1.664

1.304a

1.212

0.786a

2.447

0.449

1.262

H–M

1.171

0.402

0.338

0.330

0.127b

0.088b

0.256

0.283b

0.139

0.348

H–P

0.207b

0.166b

0.564

0.232

0.762

0.368

0.391

0.711

0.600a

0.444

M–P

0.965

0.568

0.226

0.098b

0.635

0.456

0.135b

0.427

0.461

0.441

Helicase

A–F

0.142

0.494

0.489

0.633

0.653

0.003b

0.168

0.128

0.716

0.381

A–H

0.416

1.739a

0.492

0.435

0.106b

0.946

0.735a

2.628a

1.044a

0.949

A–M

0.386

1.074

0.647a

0.059

0.184

0.837

0.053b

2.052

0.737

0.670

A–P

0.363

1.349

0.594

0.049

0.445

1.013

0.599

2.502

0.949

0.873

F–H

0.558a

1.245

0.002b

1.069a

0.546

0.949

0.568

2.500

0.328

0.863

F–M

0.528

0.580

0.158

0.574

0.836

0.840

0.115

1.924

0.021b

0.620

F–P

0.505

0.854

0.104

0.585

1.098a

1.016a

0.431

2.374

0.232

0.800

H–M

0.029

0.665

0.155

0.495

0.290

0.110

0.682

0.576

0.307

0.368

H–P

0.053

0.390

0.102

0.484

0.552

0.066

0.136

0.126b

0.096

0.223

M–P

0.024b

0.274b

0.053

0.011b

0.262

0.176

0.546

0.450

0.212

0.223

  1. A–F avian–fish, A–H avian–human, A–M avian–non-primate mammals, A–P avian–non-human primate, F–H fish–human, F–M fish–non-primate mammals, F–P fish–non-human primate, H–M human–non-primate mammals, H–P human–non-human primate, M–P non-primate mammals–non-human primate; alargest RSCU distances among the host pairs for the corresponding codon; bsmallest RSCU distances among the host pairs for the corresponding codon