|
SPDEF_1 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SPDEF |
1 |
498 |
10 |
10 |
92 |
|
TF group |
ETS |
2 |
214 |
284 |
37 |
13 |
|
Polypeptide used |
DBD |
3 |
2 |
498 |
22 |
0 |
|
Ligand sequence |
TCGCTG20NTCT |
4 |
21 |
498 |
0 |
0 |
|
Batch of SELEX experiment |
AD |
5 |
0 |
5 |
498 |
0 |
|
Seed sequence |
AMCCGGATGTN |
6 |
10 |
0 |
498 |
0 |
|
Hamming distance of sequences to seed |
1 |
7 |
498 |
0 |
1 |
1 |
|
SELEX cycle |
4 |
8 |
77 |
21 |
7 |
498 |
|
Number of repeats |
monomeric |
9 |
158 |
40 |
498 |
39 |
|
Comment |
|
10 |
0 |
81 |
0 |
498 |
|
Representative matrix |
yes |
11 |
236 |
25 |
89 |
148 |
|
Source: |
|
|
|
|
|
|
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
|
|
|
|
|
|
|
|
|
SPDEF_2 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SPDEF |
1 |
79 |
16 |
238 |
46 |
|
TF group |
ETS |
2 |
48 |
13 |
51 |
196 |
|
Polypeptide used |
DBD |
3 |
31 |
14 |
224 |
89 |
|
Ligand sequence |
TCGCTG20NTCT |
4 |
7 |
32 |
227 |
77 |
|
Batch of SELEX experiment |
AD |
5 |
31 |
0 |
4 |
205 |
|
Seed sequence |
GTGGTCCCGGATYAT |
6 |
0 |
285 |
12 |
0 |
|
Hamming distance of sequences to seed |
2 |
7 |
0 |
271 |
4 |
3 |
|
SELEX cycle |
4 |
8 |
0 |
272 |
0 |
0 |
|
Number of repeats |
putative multimer |
9 |
0 |
0 |
235 |
0 |
|
Comment |
|
10 |
0 |
0 |
232 |
3 |
|
Representative matrix |
yes |
11 |
232 |
4 |
0 |
2 |
|
|
|
12 |
15 |
10 |
0 |
201 |
|
|
|
13 |
3 |
71 |
0 |
162 |
|
Source: |
|
14 |
239 |
1 |
0 |
7 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
15 |
20 |
33 |
22 |
175 |
|
|
|
|
|
|
|
|
|
|
|
|
SPDEF_3 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SPDEF |
1 |
1468 |
675 |
2903 |
720 |
|
TF group |
ETS |
2 |
312 |
5037 |
385 |
277 |
|
Polypeptide used |
DBD |
3 |
5473 |
203 |
170 |
103 |
|
Ligand sequence |
TCGCTG20NTCT |
4 |
97 |
1 |
5689 |
33 |
|
Batch of SELEX experiment |
AD |
5 |
2053 |
243 |
1386 |
2085 |
|
Seed sequence |
NCAGNAAGAMGTAWMM |
6 |
5750 |
3 |
4 |
26 |
|
Hamming distance of sequences to seed |
3 |
7 |
5764 |
22 |
58 |
0 |
|
SELEX cycle |
4 |
8 |
1179 |
21 |
4700 |
33 |
|
Number of repeats |
putative multimer |
9 |
5403 |
4 |
443 |
7 |
|
Comment |
|
10 |
4410 |
1265 |
0 |
116 |
|
Representative matrix |
yes |
11 |
68 |
139 |
5764 |
0 |
|
|
|
12 |
124 |
76 |
249 |
5683 |
|
|
|
13 |
5731 |
0 |
99 |
273 |
|
|
|
14 |
2366 |
3 |
0 |
3405 |
|
Source: |
|
15 |
3784 |
850 |
7 |
1299 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
16 |
1829 |
3732 |
30 |
341 |
|
|
|
|
|
|
|
|
|
|
|
|
SPDEF_4 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SPDEF |
1 |
4628 |
101 |
176 |
912 |
|
TF group |
ETS |
2 |
1890 |
2737 |
536 |
77 |
|
Polypeptide used |
full |
3 |
52 |
4628 |
92 |
0 |
|
Ligand sequence |
TCATTG20NCG |
4 |
237 |
4628 |
1 |
1 |
|
Batch of SELEX experiment |
AD |
5 |
2 |
2 |
4628 |
0 |
|
Seed sequence |
AMCCGGATGTN |
6 |
6 |
0 |
4628 |
8 |
|
Hamming distance of sequences to seed |
1 |
7 |
4628 |
0 |
6 |
2 |
|
SELEX cycle |
3 |
8 |
532 |
69 |
11 |
4628 |
|
Number of repeats |
monomeric |
9 |
1566 |
601 |
4628 |
66 |
|
Comment |
|
10 |
58 |
1345 |
28 |
4628 |
|
Representative
matrix |
no |
11 |
1911 |
568 |
1339 |
810 |
|
Source: |
|
|
|
|
|
|
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
|
|
|
|
|
|
|
|
|
SPDEF_5 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SPDEF |
1 |
112 |
55 |
664 |
154 |
|
TF group |
ETS |
2 |
148 |
21 |
350 |
747 |
|
Polypeptide used |
full |
3 |
73 |
19 |
673 |
180 |
|
Ligand sequence |
TCATTG20NCG |
4 |
16 |
11 |
702 |
12 |
|
Batch of SELEX experiment |
AD |
5 |
28 |
28 |
11 |
945 |
|
Seed sequence |
GTGGTCCCGGATYAT |
6 |
15 |
1583 |
19 |
5 |
|
Hamming distance of sequences to seed |
2 |
7 |
1 |
1604 |
8 |
1 |
|
SELEX cycle |
3 |
8 |
0 |
1602 |
0 |
0 |
|
Number of repeats |
putative multimer |
9 |
0 |
0 |
703 |
0 |
|
Comment |
|
10 |
0 |
0 |
703 |
1 |
|
Representative matrix |
no |
11 |
1271 |
8 |
0 |
5 |
|
|
|
12 |
16 |
16 |
4 |
937 |
|
|
|
13 |
11 |
648 |
1 |
553 |
|
Source: |
|
14 |
1216 |
50 |
4 |
186 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
15 |
183 |
164 |
125 |
770 |
|
|
|
|
|
|
|
|
|
|
|
|
SPDEF_6 |
|
|
|
|||
|
A |
C |
G |
T |
|
Name |
SPDEF |
1 |
493 |
334 |
1423 |
83 |
|
TF group |
ETS |
2 |
129 |
2103 |
183 |
62 |
|
Polypeptide used |
full |
3 |
2189 |
183 |
86 |
40 |
|
Ligand sequence |
TCATTG20NCG |
4 |
69 |
36 |
2278 |
44 |
|
Batch of SELEX experiment |
AD |
5 |
828 |
241 |
532 |
731 |
|
Seed sequence |
NCAGNAAGAMGTAWMM |
6 |
2329 |
8 |
0 |
2 |
|
Hamming distance of sequences to seed |
3 |
7 |
2329 |
14 |
33 |
0 |
|
SELEX cycle |
3 |
8 |
587 |
37 |
1838 |
12 |
|
Number of repeats |
putative
multimer |
9 |
2001 |
9 |
333 |
29 |
|
Comment |
|
10 |
1259 |
1016 |
15 |
60 |
|
Representative
matrix |
no |
11 |
0 |
84 |
2334 |
0 |
|
|
|
12 |
5 |
0 |
224 |
2232 |
|
|
|
13 |
2331 |
0 |
17 |
102 |
|
|
|
14 |
1605 |
0 |
0 |
723 |
|
Source: |
|
15 |
888 |
1103 |
4 |
409 |
|
Jolma et al., Cell 152:327-339 (2013); PubMed 23332764 |
|
16 |
1430 |
875 |
15 |
53 |
|
|
|