Table 1

The optimized 1st order Markov chains for TFBS. The optimized arrangement of dependent positions within TFBS for the 1st order Markov model. N and ND are total number of motif positions and the number of positions significantly dependent, respectively.

ID#

Name

N

ND

Position order


1

V$AP1_Q4_01

8

8

7-3-1-2-0-6-5-4

2

V$AP1_Q6_01

9

8

2-3-1-4-5-7-8-6

3

V$AP1_Q2_01

12

9

4-3-5-6-7-10-11-9-1

4

V$CDPCR1_01

10

9

3-4-2-9-6-5-7-8-1

5

V$ATF_01

14

8

1-0-10-9-11-2-13-12

6

V$CHOP_01

13

10

5-4-6-7-9-10-0-8-11-12

7

V$CDPCR3_01

15

10

3-0-1-8-9-13-4-6-2-5

8

V$CDPCR3HD_01

10

5

1-8-9-2-7

9

V$CREB_Q2_01

14

8

1-11-12-0-2-3-9-8

10

V$CREB_Q4_01

11

6

7-6-1-8-9-10

11

V$CREB_Q3

6

4

4-5-1-0

12

V$CEBP_Q3

12

9

8-9-5-6-4-11-3-2-10

13

V$CEBPB_01

14

4

0-13-11-3

14

V$E2F_Q4_01

11

4

1-8-7-0

15

V$E2F_Q6_01

12

8

8-3-7-0-2-11-9-10

16

V$E2F1DP1_01

8

5

3-4-0-6-7

17

V$E2F1DP2_01

8

5

5-6-7-3-4

18

V$E2F4DP1_01

8

4

3-4-0-1

19

V$E2F4DP2_01

8

5

4-3-7-1-0

20

V$ETS_Q4

12

8

11-2-5-10-4-3-0-1

21

V$ELK1_02

14

4

10-11-2-3

22

V$FAC1_01

14

12

12-6-10-11-13-4-9-8-5-1-0-7

23

V$FOXD3_01

12

11

1-3-8-7-9-10-11-2-0-4-6

24

V$FOXO1_02

14

11

8-9-10-12-7-6-2-0-11-1-3

25

V$HNF4_Q6

9

7

4-3-2-6-8-1-7

26

V$HNF1_Q6

18

15

3-11-12-1-4-8-13-5-9-0-6-16-14-2-10

27

V$HNF3_Q6

13

11

1-10-7-5-3-4-12-9-0-2-8

28

V$E2F1DP1RB_01

8

5

1-7-3-0-4

29

V$IRF7_01

18

13

3-2-0-16-15-17-1-7-6-8-14-9-12

30

V$LUN1_01

17

8

8-9-10-7-12-11-14-13

31

V$MZF1_01

8

4

0-1-4-5

32

V$MYC_Q2

7

4

4-5-3-1

33

V$NFAT_Q4_01

10

4

6-8-9-5

34

V$NFKAPPAB_01

10

4

5-7-9-2

35

V$NKX22_01

10

6

9-8-6-1-0-7

36

V$OCT_Q6

11

10

8-2-0-10-5-3-9-6-4-7

37

V$PAX_Q6

11

10

10-6-7-0-9-3-1-5-4-2

38

V$PAX6_01

21

21

15-17-16-18-6-8-19-13-11-3-2-1-0-20-7-10-4-9-5-14-12

39

V$PBX1_02

15

10

6-12-2-0-3-1-11-13-14-4

40

V$RSRFC4_Q2

17

6

6-7-0-13-2-3

41

V$RSRFC4_01

16

8

6-7-9-1-2-13-12-8

42

V$STAT5A_01

15

7

8-12-1-13-0-4-5

43

V$SOX9_B1

14

9

1-13-0-2-11-5-3-10-4

44

V$SRY_01

7

4

4-6-0-1

45

V$SRY_02

12

4

1-3-11-4

46

V$STAT5A_02

24

16

7-12-20-15-16-17-18-19-22-1-21-13-5-6-9-23

47

V$SP1_Q2_01

10

7

7-3-8-0-4-9-5

48

V$SP1_Q4_01

13

13

0-2-11-12-6-1-3-10-9-8-7-4-5

49

V$SP1_Q6_01

10

10

3-5-8-9-0-7-4-2-6-1

50

V$USF_Q6_01

12

8

3-11-4-5-7-2-1-8

51

V$XBP1_01

17

9

13-5-3-4-15-11-10-12-0

52

V$ZID_01

13

8

6-7-4-8-12-10-9-11

53

I$DRI_01

10

7

6-9-8-7-0-1-2


Huang et al. BMC Bioinformatics 2006 7:279   doi:10.1186/1471-2105-7-279

Open Data