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Table 2 Regrouping of SLS clusters.

From: Systematic identification of stem-loop containing sequence families in bacterial genomes

  

Grouped by

Located within

Species

Clusters

sequence

strand

location

IS

rRNA

B. anthracis

4

3

2

2

  

B. halodurans

6

6

4

3

 

1

B. subtilis

2

2

1

1

 

1

C. perfringens

6

2

1

1

  

C. tetani

14

13

10

6

3

 

E. faecalis

7

5

3

3

1

 

L. johnsonii

3

3

2

2

1

 

S. aureus

11

7

5

4

  

S. pneumoniae

28

22

13

9

6

 

M. genitalium

1

1

1

1

  

M. pneumoniae

20

20

18

12

  

C. diphtheriae

9

7

5

4

1

 

M. leprae

29

18

11

5

  

M. tuberculosis

59

36

21

15

3

 

B. melitensis

11

7

5

4

  

R. conorii

19

6

4

4

  

B. bronchiseptica

26

8

5

4

  

B. parapertussis

30

16

10

5

4

 

B. pertussis

52

28

16

4

3

 

N. meningitidis

44

9

7

6

  

E. coli

12

8

6

6

 

2

H. influenzae

3

1

1

1

  

P. multocida

1

1

1

1

  

P. aeruginosa

9

5

4

4

  

P. putida

75

35

26

14

4

2

S. typhi

8

4

3

3

 

2

S. typhimurium

7

6

4

4

 

1

V. cholerae

7

7

5

4

 

2

Y. pestis

20

15

11

5

2

 

Total

523

301

205

137

28

11

  1. Clusters reported in Table 1 were regrouped, according to sequence similarity, strand reciprocity and relative genomic position of their elements, as described in Methods. The number of groups, obtained by each criterion, is reported in the three columns labelled "Grouped by". Several groups are composed of sequences, contained within ISs or rRNA genes; their number is shown in the last two columns, for each genome.
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BMC Genomics

ISSN: 1471-2164

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