Table 1

Characteristics of 47 C. difficile VNTR loci

Locus

Repeat (bp)

C. difficile 630a

P142


Location

Copy number

No. alleles

Simpson's allelic diversity

Typeability (%)


C6cdb

6

3239736-855

16

32

0.96

98

CDR4b

6

755721-942

37

38

0.96

97

CDR49b

7

3688632-750

17

22

0.94

99

CDR60b, c

17

677132-413

265

20

0.94

92

CDR9b

8

664660-747

6

20

0.93

83

CDR5b

8

692929-3017

11

13

0.9

70

CDR48b

7

167124-172

7

10

0.84

99

cd7c

7

941339-465

128

10

0.83

97

cd5c

17-19

828221-372

150

15

0.8

96

cd6c

42

917090-173

84

10

0.78

99

CDR59b,c

11

771338-403

167

11

0.76

99

cd25c

12

3748418-65

57

6

0.71

98

F3cd b

3

1954915-935

7

5

0.7

100

H9cd b

3

4116072-110

13

7

0.62

100

cd12

12

1578610-45

3

4

0.61

100

cd22

15

3035898-942

2

5

0.58

99

cd20

17

2913124-157

2

3

0.56

79

cd19

18

2724077-166

5

4

0.56

100

cd27

15

1662349-63

2

5

0.55

100

cd31

17

4261467-517

3

3

0.54

100

cd10

6

1366501-24

4

2

0.5

100

cd16

11

2004175-85

1

2

0.5

98

cd41

18

857052-105

3

3

0.49

100

cd29

16

2025983-6014

2

2

0.49

100

cd8

8

1216864-79

2

5

0.42

77

cd23

21

3157267-350

4

5

0.41

100

cd17

8

2062186-201

2

2

0.35

100

cd30

15

3095446-75

2

2

0.33

100

cd15

5

1909382-6

2

3

0.32

100

cd14

19

1908272-309

2

2

0.3

100

cd39

5

1021318

0

9

0.28

100

cd4

15

667998-8057

3

3

0.27

100

cd21

6

2982766-787

8

3

0.27

100

cd2

14

463809-36

2

2

0.25

100

cd40

5

209313-27

3

3

0.22

100

cd9

3

1268365-77

4

2

0.22

100

cd42

4

1818181-92

3

4

0.21

99

cd28

8

1821467-82

2

4

0.2

79

cd18

4

2611912-27

4

4

0.16

100

cd33

24

1563736-83

2

2

0.12

100

cd13

23

1833582-673

4

4

0.11

100

cd36

3

4231072-84

2

3

0.11

100

cd24

10

3621903-22

2

2

0.09

100

cd32

6

339734-45

2

2

0.06

100

cd35

6

3925113-24

2

2

0.03

96

cd34

6

2033446-57

2

2

0.03

99

cd38

7

811821-34

2

2

0.03

100


a Accesstion number in Genbank is AM180355.

b Identified previously by Marsh et al. [13] and van den Berg et al. [14].

c This locus contains incomplete repeat and is denoted by the size of array.

Wei et al. BMC Microbiology 2011 11:217   doi:10.1186/1471-2180-11-217

Open Data