SOX9_m1

 

 

 

 

A

C

G

T

 

Name

SOX9

1

1773

710

2287

1416

 

TF group

HMG

2

6186

1156

1398

1461

 

Polypeptide used

DBD

3

6186

1

38

486

 

Ligand sequence

TCTCAA20NGA

4

0

6186

87

247

 

Batch of SELEX experiment

O

5

6186

0

0

42

 

Seed sequence

NAACAATRN

6

6186

24

30

19

 

Hamming distance of sequences to seed

1

7

541

82

94

6186

 

SELEX cycle

4

8

2685

429

3501

857

 

Number of repeats

monomeric

9

1234

1410

2993

549

 

Comment

 

 

 

 

 

 

 

Representative matrix

yes

 

 

 

 

 

 

Source:

 

 

 

 

 

 

 

Jolma et al., Cell 152:327-339 (2013); PubMed 23332764

 

 

 

 

 

 

 

 

 

SOX9_d1

 

 

 

 

A

C

G

T

 

Name

SOX9

1

242

0

0

0

 

TF group

HMG

2

242

0

4

0

 

Polypeptide used

full

3

0

242

0

0

 

Ligand sequence

TGGGGT20NGGT

4

242

0

0

0

 

Batch of SELEX experiment

W

5

242

0

0

0

 

Seed sequence

AACAATRTKCAGWGTT

6

0

0

0

242

 

Hamming distance of sequences to seed

1

7

68

6

174

4

 

SELEX cycle

3

8

0

0

0

242

 

Number of repeats

dimeric

9

3

8

193

49

 

Comment

possible binding to single stranded DNA

10

2

242

0

0

 

Representative matrix

no

11

242

0

0

0

 

 

 

12

0

0

242

2

 

 

 

13

0

0

0

242

 

 

 

14

2

0

242

0

 

Source:

 

15

0

0

0

242

 

Jolma et al., Cell 152:327-339 (2013); PubMed 23332764

16

2

2

0

242

 

 

 

 

 

 

 

 

 

 

 

 

SOX9_d2

 

 

 

 

A

C

G

T

 

Name

SOX9

1

174

0

0

0

 

TF group

HMG

2

0

0

0

174

 

Polypeptide used

full

3

0

174

0

0

 

Ligand sequence

TGGGGT20NGGT

4

174

0

0

0

 

Batch of SELEX experiment

W

5

174

0

0

0

 

Seed sequence

ATCAATRTKCAGWGAT

6

0

0

0

174

 

Hamming distance of sequences to seed

1

7

55

2

119

1

 

SELEX cycle

3

8

0

0

0

174

 

Number of repeats

dimeric

9

5

20

100

74

 

Comment

possible binding to single stranded DNA

10

0

174

0

2

 

Representative matrix

yes

11

174

2

0

0

 

 

 

12

0

0

174

2

 

 

 

13

0

0

0

174

 

 

 

14

0

4

174

0

 

Source:

 

15

174

0

0

0

 

Jolma et al., Cell 152:327-339 (2013); PubMed 23332764

16

2

2

0

174

 

 

 

 

 

 

 

 

 

 

 

 

SOX9_d3

 

 

 

 

A

C

G

T

 

Name

SOX9

1

554

0

2

0

 

TF group

HMG

2

0

0

0

554

 

Polypeptide used

full

3

0

4

554

0

 

Ligand sequence

TGGGGT20NGGT

4

554

0

0

0

 

Batch of SELEX experiment

W

5

554

0

0

0

 

Seed sequence

ATGAATRTKCAGWCAT

6

0

0

0

554

 

Hamming distance of sequences to seed

1

7

166

7

388

20

 

SELEX cycle

3

8

4

0

0

554

 

Number of repeats

dimeric

9

53

31

329

225

 

Comment

possible binding to single stranded DNA

10

2

554

0

0

 

Representative matrix

yes

11

554

0

2

2

 

 

 

12

0

0

554

2

 

 

 

13

0

0

0

554

 

 

 

14

0

554

0

0

 

Source:

 

15

554

0

0

0

 

Jolma et al., Cell 152:327-339 (2013); PubMed 23332764

16

5

0

0

554

 

 

 

 

 

 

 

 

 

 

 

 

SOX9_d4

 

 

 

 

A

C

G

T

 

Name

SOX9

1

2434

269

1137

648

 

TF group

HMG

2

4487

4

0

1

 

Polypeptide used

full

3

4487

0

9

0

 

Ligand sequence

TGGGGT20NGGT

4

2

4487

0

0

 

Batch of SELEX experiment

W

5

4487

0

0

0

 

Seed sequence

NAACAATKNYAGTGTTN

6

4487

0

9

1

 

Hamming distance of sequences to seed

1

7

0

2

0

4487

 

SELEX cycle

3

8

0

4

898

3589

 

Number of repeats

dimeric

9

611

250

2105

1521

 

Comment

possible binding to single stranded DNA

10

2

3656

0

831

 

Representative matrix

no

11

4487

6

6

0

 

 

 

12

0

0

4487

43

 

 

 

13

1

4

0

4487

 

 

 

14

0

0

4487

0

 

 

 

15

3

0

4

4487

 

Source:

 

16

16

34

9

4487

 

Jolma et al., Cell 152:327-339 (2013); PubMed 23332764

17

832

1074

416

2165

 

 

 

 

 

 

 

 

 

 

 

 

SOX9_d5

 

 

 

 

A

C

G

T

 

Name

SOX9

1

1238

404

341

587

 

TF group

HMG

2

2570

2

0

0

 

Polypeptide used

full

3

3

1

0

2570

 

Ligand sequence

TGGGGT20NGGT

4

0

2570

0

0

 

Batch of SELEX experiment

W

5

2570

0

0

0

 

Seed sequence

NATCAATKNYAGTGATN

6

2570

0

2

0

 

Hamming distance of sequences to seed

1

7

0

0

0

2570

 

SELEX cycle

3

8

0

0

799

1771

 

Number of repeats

dimeric

9

274

225

1032

1039

 

Comment

possible binding to single stranded DNA

10

0

1823

0

747

 

Representative matrix

no

11

2570

2

4

0

 

 

 

12

0

0

2570

33

 

 

 

13

0

0

4

2570

 

 

 

14

0

0

2570

0

 

 

 

15

2570

0

0

0

 

Source:

 

16

22

2

7

2570

 

Jolma et al., Cell 152:327-339 (2013); PubMed 23332764

17

722

323

420

1105

 

 

 

 

 

 

 

 

 

 

 

 

SOX9_d6

 

 

 

 

A

C

G

T

 

Name

SOX9

1

2735

1285

1411

990

 

TF group

HMG

2

6421

0

0

4

 

Polypeptide used

full

3

0

6

0

6421

 

Ligand sequence

TGGGGT20NGGT

4

26

0

6421

0

 

Batch of SELEX experiment

W

5

6421

1

0

0

 

Seed sequence

NATGAATKNYAGTCATN

6

6421

2

15

0

 

Hamming distance of sequences to seed

1

7

2

4

0

6421

 

SELEX cycle

3

8

2

2

1317

5104

 

Number of repeats

dimeric

9

738

362

3145

2175

 

Comment

possible binding to single stranded DNA

10

0

5181

2

1240

 

Representative matrix

no

11

6421

4

6

0

 

 

 

12

2

0

6421

112

 

 

 

13

4

0

0

6421

 

 

 

14

2

6421

0

4

 

 

 

15

6421

0

4

0

 

Source:

 

16

24

4

12

6421

 

Jolma et al., Cell 152:327-339 (2013); PubMed 23332764

17

1348

1251

1315

2508