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Table 2 Sequence diversity (mean p-distance) among different genomic regions of DENV-3

From: Strategically examining the full-genome of dengue virus type 3 in clinical isolates reveals its mutation spectra

   

Nucleotide

Amino acid

Virus ID No.

Region

No of Clones

No of change/total

Mutation frequencya (10-3)

A→G or U→Cb (%)

Mean p-distancec(10-3)

Range (10-3)

No of change/total

Mutation frequencya(10-3)

Mean p-distancec(10-3)

Range (10-3)

1F

C/PrM

23

24/17733

1.4

66.7

2.67

0–6.7

13/5175

2.5

5

0–8.9

1H

C/PrM

29

29/22359

1.3

69

2.45

0–6.7

17/6525

2.6

5.12

0–22.2

2H

C/PrM

21

16/16191

1.0

81.3

2.03

0–6.7

9/4725

1.9

3.81

0–13.3

2F

C/PrM

22

18/16962

1.1

72.2

2.17

0–6.7

10/4950

2.0

4

0–13.3

3H

C/PrM

13

11/10023

1.1

72.7

1.81

0–4

7/2925

2.4

4.7

0–17.8

3F

C/PrM

24

24/18504

1.3

75

2.55

0–8

13/5400

2.4

4.8

0–17.8

Mean ± std

C/PrM

22

 

1.2 ± 0.15

72.8 ± 5.1

2.28 ± 0.3

  

2.3 ± 0.3

4.6 ± 0.5

 

1F

E/NS1

26

40/32240

1.2

72.5

2.23

0–6.5

21/10192

2.1

4.3

0–10.2

1H

E/NS1

13

47/16250

2.9

61.7

3.82

0–6.4

17/5096

3.3

6.6

0–7.6

2H

E/NS1

25

33/16250

2.0

93.9

3.88

0–5.6

34/9800

3.5

6.4

0–12.6

2F

E/NS1

13

15/22103

0.7

66.7

3.18

0–2.8

4/5096

0.8

7.6

0–9

3H

E/NS1

23

44/20240

2.2

72.7

3.83

0–4.8

55/9016

6.1

6.2

0–12.6

3F

E/NS1

20

39/24960

1.6

74.4

2.56

0–6.8

20/7840

2.6

4.8

0–21.7

Mean ± std

E/NS1

20

 

1.8 ± 0.8

73.7 ± 11

3.7 ± 0.7

  

3.1 ± 1.8

6 ± 1.2

 

1F

NS3

19

5/17005

0.3

60

0.9

0–3.5

8/4978

1.6

3.3

0–11.4

1H

NS3

27

16/24165

0.7

56.3

1.2

0–4.6

11/7074

1.6

3.1

0–11.4

2H

NS3

26

9/23270

0.4

33.3

1.2

0–4.6

6/6812

0.9

3.2

0–11.5

2F

NS3

25

16/22375

0.7

40

2.4

0–5.8

12/6550

1.8

5.7

0–15.3

3H

NS3

23

25/20585

1.2

16

1.6

0–4.6

6/6026

1.0

2.0

0–11.4

3F

NS3

18

8/16110

0.5

62.5

1.0

0–4.6

4/4716

0.8

1.6

0–11.4

Mean ± std

 

23

 

0.6 ± 0.3

44.7 ± 18

1.4 ± 0.6

  

1.3 ± 0.4

3 ± 1.4

 

1F

NS5

13

29/23335

1.2

69

1.7

0–4.5

17/7748

2.2

4.1

0–8.4

1H

NS5

17

32/30515

1.0

71.9

2.4

0–5.6

31/10132

3.1

3.5

0–8.4

2H

NS5

18

51/32310

1.6

64.7

3.0

0–8.9

33/10728

3.1

6.1

0–18.5

2F

NS5

25

60/44875

1.3

65

2.5

0–5.6

47/14900

3.2

3.6

0–8.4

3H

NS5

16

64/28720

2.2

56.3

4.3

0–7.3

46/9536

4.8

6.8

0–15.2

3F

NS5

26

69/46670

1.5

52.2

3.7

0–6.7

52/15496

3.4

6.5

0–11.8

Mean ± std

 

19

 

1.5 ± 0.4

63.2 ± 7.5

3.1 ± 0.9

  

3.3 ± 0.8

5.1 ± 1.5

 
  1. aMutation frequency is defined as the proportion of mutations relative to the consensus nucleotide or amino acid sequence for each patient and calculated by dividing the number of mutations relative to consensus by the total number of nucleotides or amino acid sequenced in each sample.
  2. b Percentage of A→G or U→C transitional mutations
  3. c p-distance is calculated by pairwise comparison of nucleotide or amino acid sequences between clones by the program MEGA d Indicated the virus derived from mosquito inoculation by C6/36-passaged one virus of patient ID#1H.