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Table 2 Pairwise comparison of LR3.HRM4 amplicon (226 nt segment of Hsp70h) for each variant group

From: Real-time RT-PCR high-resolution melting curve analysis and multiplex RT-PCR to detect and differentiate grapevine leafroll-associated virus 3 variant groups I, II, III and VI

  

Variant group representative isolates

  

1

2

3

4

5

6

7

8

9

10

Group I_GU983863.1_GLRaV-3_Isolate_WA-MR

1

 

0

1

1

9

10

24

50

50

53

Group I_AF037268.2_GLRaV-3_Isolate_NY-1

2

100

 

1

1

9

10

24

50

50

53

Group I_EU344893.1_GLRaV-3_Isolate_Cl-766

3

99.56

99.56

 

2

9

10

24

50

50

53

Group I_GQ352631.1_GLRaV-3_Isolate_621

4

99.56

99.56

99.12

 

10

11

25

49

49

52

Group II_GQ352632.1_GLRaV-3_Isolate_623

5

96.02

96.02

96.02

95.58

 

2

27

49

49

53

Group II_EU259806.1_GLRaV-3_Isolate_GP18

6

95.58

95.58

95.58

95.13

99.12

 

27

51

51

53

Group III_GQ352633.1_GLRaV-3_Isolate PL-20

7

89.38

89.38

89.38

88.94

88.05

88.05

 

58

58

61

Group VI_JQ655295_GLRaV-3_Isolate GH11

8

77.88

77.88

77.88

78.32

78.32

77.43

74.34

 

0

10

Group VI_JQ655296_GLRaV-3_Isolate_GH30

9

77.88

77.88

77.88

78.32

78.32

77.43

74.34

100

 

10

Group VI_EF508151.1_GLRaV-3_Isolate_NZ-1

10

76.55

76.55

76.55

76.99

76.55

76.55

73.01

95.58

95.58

 
  1. The upper comparison in bold is the number of nucleotide differences between variant sequences and the lower comparison is the percent identity (%) between variant sequences.