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Table 1 Relative synonymous codon usage (RSCU) and number of codons per 1000 codons (NC1000) in the protein coding genes of the mitochondrial genome of R. similis.

From: A unique genetic code change in the mitochondrial genome of the parasitic nematode Radopholus similis

AA

codon

RSCU*

NC1000

AA

codon

RSCU

NC1000

AA

codon

RSCU

NC1000

AA

codon

RSCU

NC1000

F

TTC

0.003

0.295

S2

TCA

1.009

8.267

Y

TAC

0.000

0.000

C

TGC

0.000

0.000

 

TTT

1.997

179.805

 

TCC

0.000

0.000

 

TAT

1.368

38.382

 

TGT

2.000

6.200

L2

TTA

3.436

152.938

 

TCG

0.108

0.886

 

TAA

1.632

45.763

W

TGA

1.721

10.924

 

TTG

0.564

25.096

 

TCT

2.883

23.620

Stop

TAG

1.000

1.48

 

TGG

0.279

1.771

L1

CTA

0.696

1.181

P

CCA

1.231

4.724

H

CAC

0.041

0.295

R

CGA

0.296

0.590

 

CTC

0.000

0.000

 

CCC

0.000

0.000

 

CAT

1.959

14.172

 

CGC

0.000

0.000

 

CTG

0.174

0.295

 

CCG

0.154

0.590

Q

CAA

1.267

5.610

 

CGG

0.000

0.000

 

CTT

3.130

5.314

 

CCT

2.615

10.038

 

CAG

0.733

3.248

 

CGT

3.704

7.381

I

ATC

0.006

0.295

T

ACA

0.678

2.952

N

AAC

0.023

0.590

S1

AGA

0.932

10.038

 

ATT

1.994

100.384

 

ACC

0.000

0.000

 

AAT

1.977

51.668

 

AGC

0.055

0.590

M

ATA

1.716

53.440

 

ACG

0.068

0.295

K

AAA

1.448

22.439

 

AGG

0.137

1.476

 

ATG

0.284

8.857

 

ACT

3.254

14.172

 

AAG

0.552

8.562

 

AGT

2.877

31.001

V

GTA

1.117

14.762

A

GCA

0.596

2.067

D

GAC

0.000

0.000

G

GGA

0.722

7.676

 

GTC

0.089

1.181

 

GCC

0.085

0.295

 

GAT

2.000

18.010

 

GGC

0.028

0.295

 

GTG

0.268

3.543

 

GCG

0.000

0.000

E

GAA

1.460

13.581

 

GGG

0.167

1.771

 

GTT

2.525

33.363

 

GCT

3.319

11.515

 

GAG

0.540

5.019

 

GGT

3.083

32.772

  1. * RSCU is the number of times a particular codon is observed relative to the number of times a codon would be observed in the absence of any codon usage bias. Based on a total of 3378 codons.