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Promoter element HMMs derived from EPD release 60 (September 1999):
-
General eukaryotic TATA-box model derived from 878 unrelated promoter sequences:
| Position |
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
9 |
10 |
11 |
12 |
| % A |
21.2 |
19.4 |
5.3 |
81.9 |
3.8 |
86.9 |
65.8 |
86.2 |
49.2 |
38.7 |
15.7 |
19.3 |
| % C |
22.5 |
36.5 |
12.2 |
1.7 |
4.7 |
1.0 |
1.0 |
3.0 |
1.7 |
12.4 |
35.0 |
36.8 |
| % G |
28.0 |
33.1 |
5.6 |
1.7 |
1.4 |
2.3 |
0.7 |
7.5 |
14.1 |
37.6 |
37.6 |
30.1 |
| % T |
28.3 |
11.0 |
76.8 |
14.7 |
90.1 |
9.7 |
32.5 |
3.3 |
35.1 |
11.3 |
11.7 |
13.7 |
| Consensus |
|
|
T |
A |
T |
A |
W |
A |
D |
R |
|
|
| Estimated proportion of TATA-box containing promoters:
79.3% |
-
TATA-box HMM trained from 601 unrelated vertebrate promoter sequences:
| Position |
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
9 |
10 |
11 |
12 |
| % A |
19.5 |
19.9 |
5.7 |
79.1 |
4.8 |
86.3 |
68.2 |
84.1 |
53.0 |
31.7 |
15.5 |
17.7 |
| % C |
21.7 |
35.5 |
16.2 |
1.6 |
6.0 |
1.1 |
0.7 |
3.4 |
1.5 |
12.6 |
32.7 |
34.7 |
| % G |
29.2 |
33.8 |
7.2 |
1.3 |
1.8 |
2.3 |
0.7 |
9.7 |
18.4 |
44.9 |
39.7 |
33.1 |
| % T |
29.5 |
10.7 |
70.9 |
18.0 |
87.3 |
10.4 |
30.4 |
2.8 |
27.2 |
10.8 |
12.1 |
14.5 |
| Consensus |
|
|
T |
A |
T |
A |
W |
A |
D |
R |
|
|
| Estimated proportion of TATA-box containing promoters:
76.5% |
-
TATA-box HMM trained from 132 unrelated plant promoter sequences:
| Position |
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
9 |
10 |
11 |
12 |
| % A |
29.3 |
18.1 |
7.3 |
83.6 |
1.3 |
88.2 |
58.3 |
93.4 |
27.2 |
57.5 |
14.4 |
25.8 |
| % C |
22.7 |
54.5 |
3.6 |
3.6 |
3.0 |
0.8 |
0.9 |
1.0 |
1.9 |
12.6 |
42.2 |
46.8 |
| % G |
16.2 |
12.4 |
2.0 |
2.6 |
1.9 |
1.3 |
0.4 |
3.2 |
5.3 |
13.6 |
29.4 |
19.0 |
| % T |
31.7 |
15.0 |
87.1 |
10.2 |
93.8 |
9.7 |
40.4 |
2.5 |
65.6 |
16.3 |
14.0 |
8.4
|
|
Consensus
|
|
|
T
|
A
|
T
|
A
|
W
|
A
|
W
|
A
|
|
|
| Estimated proportion of TATA-box containing promoters:
92.3% |
-
TATA-box HMM trained from 109 unrelated insect promoter sequences:
| Position |
1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
9 |
10 |
11 |
12 |
| % A |
23.5 |
17.9 |
0.7 |
86.9 |
0.8 |
89.9 |
62.3 |
94.2 |
66.3 |
42.1 |
22.6 |
20.8 |
| % C |
25.6 |
24.9 |
4.6 |
1.3 |
0.5 |
0.4 |
1.6 |
0.7 |
0.4 |
10.3 |
38.0 |
37.1 |
| % G |
36.0 |
54.1 |
0.7 |
3.5 |
0.4 |
2.2 |
0.4 |
0.6 |
5.8 |
39.7 |
35.8 |
27.5 |
| % T |
14.9 |
3.0 |
94.0 |
8.3 |
98.3 |
7.5 |
35.7 |
4.5 |
27.5 |
7.9 |
3.6 |
14.5
|
|
Consensus
|
|
|
T
|
A
|
T
|
A
|
W
|
A
|
W
|
R
|
|
|
| Estimated proportion of TATA-box containing promoters:
71.2% |
Last update October 2019
