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Table 2 The Relative synonymous codon usage (RSCU) patterns of polymerase genes of EIVs and their host species

From: Genetic and codon usage bias analyses of polymerase genes of equine influenza virus and its relation to evolution

Amino acid

Codon

PB2

PB1

PA

Horse

Donkey

Dog

Amino acid

Codon

PB2

PB1

PA

Horse

Donkey

Dog

Phe

UUU

0.98

0.63

1.22

0.83

0.88

0.82

Ser

UCA

2.2

1.58

1.18

0.80

0.83

0.81

 

UUC

1.02

1.38

0.77

1.17

1.12

1.16

 

UCG

0.43

0.17

0.15

0.34

0.24

0.38

Leu

UUA

0.55

0.72

1.08

0.33

0.24

0.35

 

AGU

0.76

0.68

1.25

0.86

1.10

0.89

 

UUG

1.45

1.29

0.92

0.72

0.82

0.68

 

AGC

1.24

1.32

0.74

1.48

1.27

1.56

 

CUU

1.16

0.65

1.35

0.73

0.80

0.67

Arg

AGA

1.4

1.57

1.13

1.30

1.49

1.20

 

CUC

0.88

0.79

1.05

1.32

1.63

1.25

 

AGG

0.6

0.43

0.87

1.32

1.86

1.32

 

CUA

0.95

1.11

0.66

0.34

0.18

0.37

 

CGU

0.63

0.00

0.57

0.55

0.49

0.46

 

CUG

1

1.44

0.92

2.56

2.33

2.45

 

CGC

0.99

0.48

1.13

1.15

0.79

1.26

Ile

AUU

1.31

0.91

1.24

0.92

0.58

0.96

 

CGA

0.98

1.91

2.1

0.61

0.74

0.67

 

AUC

0.52

0.85

0.83

1.66

1.95

1.61

 

CGG

1.4

1.61

0.17

1.08

0.62

1.31

 

AUA

1.18

1.24

0.93

0.42

0.47

0.45

Cys

UGU

0.01

1.19

0.59

0.89

0.62

0.85

Val

GUU

0.76

0.91

0.96

0.60

0.64

0.58

 

UGC

1.99

0.81

1.4

1.11

1.38

1.10

 

GUC

0.66

1.12

0.63

1.08

1.42

1.1

His

CAU

1.4

1.11

0.92

0.81

0.89

0.78

 

GUA

1.18

1.08

1.04

0.35

0.29

0.42

 

CAC

0.6

0.89

1.07

1.19

1.11

1.22

 

GUG

1.4

0.89

1.34

1.97

1.65

1.98

Gln

CAA

1.25

1.24

1.25

0.52

0.84

0.50

Pro

CCU

1.1

1.13

0.39

1.19

0.83

1.08

 

CAG

0.75

0.76

0.74

1.48

1.16

1.46

 

CCC

0.96

0.75

0.85

1.38

1.60

1.47

Asn

AAU

1.2

1.15

0.97

0.84

0.66

0.87

 

CCA

1.79

1.66

2.16

0.97

1.06

1.05

 

AAC

0.8

0.85

1.02

1.16

1.34

1.12

 

CCG

0.14

0.47

0.58

0.45

0.51

0.51

Lys

AAA

1.37

1.32

1.33

0.79

0.79

0.79

Thr

ACU

0.83

1.07

0.77

0.94

0.82

0.89

 

AAG

0.63

0.89

0.67

1.21

1.21

1.13

 

ACC

0.93

0.85

1.11

1.58

1.77

1.58

Asp

GAU

1.15

1.27

1.25

0.83

0.84

0.86

 

ACA

1.85

1.89

2

0.96

0.79

1.05

 

GAC

0.85

0.73

0.74

1.17

1.16

1.09

 

ACG

0.39

0.19

0.1

0.52

0.61

0.53

Glu

GAA

1.36

1.34

1.16

0.76

0.84

0.79

Ala

GCU

0.94

1.03

1.26

1.05

1.20

1

 

GAG

0.64

0.66

0.83

1.24

1.16

1.23

 

GCC

0.93

0.94

0.81

1.72

1.74

1.78

Gly

GGU

0.7

0.74

0.84

0.65

0.87

0.65

 

GCA

1.79

1.75

1.44

0.77

0.77

0.81

 

GGC

0.67

0.5

0.49

1.43

1.42

1.45

 

GCG

0.35

0.29

0.48

0.45

0.30

0.47

 

GGA

1.99

1.53

1.7

0.95

0.85

1.02

Tyr

UAU

0.76

0.96

1.23

0.75

0.63

0.79

 

GGG

0.64

1.23

0.96

0.97

0.86

1.05

 

UAC

1.24

1.04

0.76

1.25

1.37

1.15

        

Ser

UCU

0.53

0.68

1.38

1.09

1.10

1.09

        
 

UCC

0.84

1.57

1.27

1.43

1.46

1.52

        
  1. Over- (RSCU ≥1.6) and under-represented (RSCU ≤0.6) codons are displayed in bold and italics, respectively
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