Table 7

Motifs passing our set of stringent filters, ranked by their degree of conservation

ka

Cluster #

Motif

MAP scoreb

Specificityc

Knownd

Palind-romicitye

Conser-vationf

Motif Logog


100

71

1

65.6

1.8E-29

KstR

0.93

46


250

179

1

88.6

4.8E-26

KstR

0.71

43


50

35

1

87.4

1.8E-19

KstR

0.79

40


200

182

1

94.2

5.7E-28

KstR

0.80

36


100

73

2

31.3

1.5E-32

IdeR

0.85

30


100

49

15

16.3

2.8E-18

KstR

0.71

29


250

112

1

25.5

2.1E-25

DosR

0.76

21


100

80

1

15.0

2.2E-14

0.92

21


50

29

1

15.0

2.2E-14

0.92

21

X


50

23

31

21.7

6.7E-24

0.71

18


200

47

64

7.2

1.2E-15

0.75

16


250

87

1

22.1

1.5E-13

ZurB

0.94

16


200

6

1

16.3

2.0E-12

IdeR

0.70

16


200

184

19

12.1

4.7E-13

0.75

16


250

123

18

14.5

3.7E-11

0.82

16


250

224

1

26.9

6.2E-24

DosR

0.73

15


200

46

3

19.8

1.6E-12

0.78

15


100

5

25

12.4

3.8E-15

0.71

14


200

120

62

15.3

2.0E-14

0.74

14


200

71

9

16.6

2.3E-16

0.75

14


200

195

1

25.4

7.2E-26

DosR

0.76

14


50

48

1

68.8

6.4E-35

DosR

0.86

13


100

74

1

66.9

3.6E-34

DosR

0.88

13


50

23

12

26.8

5.0E-22

0.73

13


250

89

1

46.636

4.0E-20

0.75

12


100

81

84

6.4

2.3E-16

0.71

12


250

92

6

5.7

3.7E-17

DosR

0.73

12


100

52

91

9.7

1.5E-18

0.76

11


200

91

1

47.1

4.7E-20

0.70

10


50

36

43

34.8

4.6E-30

0.72

10


100

42

4

15.3

2.8E-17

0.70

10


200

80

9

8.5

4.0E-13

0.72

10


50

43

7

15.7

8.7E-12

0.72

10


50

36

21

48.5

5.3E-12

0.71

10


200

26

17

7.5

2.1E-12

0.70

9


50

6

61

6.3

1.2E-11

0.73

9


50

11

43

13.7

1.4E-11

0.72

14


ak indicates the value of k in the k-means clustering process (50, 100, 200, or 250)

bMAP score indicates the AlignACE MAP score [76]

cSpecificity score [77]

dCompareACE score ≥ 0.7 to the alignment for this known motif

eCompareACE score to its reverse complement

fnumber of ScanACE hits in the genome that are conserved in ≥ 8 genomes

gsequence logo [78]

McGuire et al. BMC Genomics 2012 13:120   doi:10.1186/1471-2164-13-120

Open Data