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Table 2 Patterns for method 0, recognition of any IFN-inducible DNA region (stimulation by any IFN)

From: Recognition of interferon-inducible sites, promoters, and enhancers

Site 1

Site 2

W = F1/F2 (weight for the pattern)

strongISGF3 (b)*

from -350 to +350**

-

8.57

strong ISGF3 (+)

from -350 to +350

-

10.48

ISGF3 (b)

from -200 to +50

-

9.41

ISGF3 (+)

from -200 to +50

ISGF3 (+)

from -500 to +1

9.41

strong ISGF3 (+)

from +130 to +350

ISGF3 (+)

from +130 to +350

3.14

strong STAT1 (-)

from -350 to +350

-

9.36

STAT1 (-)

from -350 to +350

-

3.66

STAT1 (-)

from -200 to +50

STAT1 (+)

from -350 to +350

3.76

STAT1 (-)

from +130 to +350

-

3.22

strong IRF1 (b)

from -350 to +350

-

5.0

IRF1 (-)

from -650 to +350

-

5.18

IRF1 (-)

from -200 to +50

IRF1 (-)

from +130 to +350

3.50

AP1 (+)

from -500 to -300

-

1.20

AP1 (b)

from -300 to +1

-

1.13

NF-Y (-)

from -150 to +50

-

1.28

OCT1 (+)

from -300 to +50

-

1.31

NF-κB (-)

from -300 to +1

NF-κB (+)

from -300 to +1

5.16

ISGF3 (b)

from -200 to +50

STAT1 (+)

from -350 to +350

3.64

STAT1 (b)

from +130 to +350

TATA (+)

from -100 to +70

3.50

STAT1 (b)

from -300 to +1

TATA (+)

from -100 to +70

13.0

STAT1 (-)

from +130 to +350

TATA (+)

from -100 to +70

3.0

AP1 (b)

from -300 to +1

TATA (+)

from -100 to +70

2.0

STAT1 (+)

from -350 to +350

IRF1 (b)

from -300 to +1

3.74

IRF1 (+)

from -350 to +350

ISGF3 (b)

from -500 to +1

5.1

strong ISGF3 (b)

from -600 to +350

STAT1 (b)

from -650 to +350

10.8

ISGF3 (b)

from -200 to +50

STAT1 (b)

from -650 to +350

5.8

strong IRF1 (b)

from -650 to +350

STAT1 (b)

from -650 to +350

10.8

strong IRF1 (b)

from -650 to +350

strong ISGF3 (b)

from -600 to +350

5.8

ISGF3 (b)

from -200 to +50

strong IRF1 (b)

from -650 to +350

3.8

strong ISGF3 (b)

from -600 to +350

IRF1 (b)

from -500 to +1

4.8

ISGF3 (b)

from -200 to +50

IRF1 (b)

from -500 to +1

4.8

NF-κB (b)

from -500 to +1

strong IRF1 (b)

from -650 to +350

8.8

NF-κB (b)

from -500 to +1

strong IRF1 (b)

from -500 to +1

3.8

NF-κB (b)

from -500 to +1

AP1 (b)

from -500 to +1

1.8

IRF1 (b)

from -200 to +50

NF-κB (b)

from -500 to +1

2.0

AP1 (b)

from -500 to +1

strong IRF1 (b)

from -650 to +350

3.8

AP1 (b)

from -500 to +1

IRF1 (b)

from -500 to +1

1.8

ISGF3 (b)

from -200 to +50

OCT1 (b)

from -500 to +1

1.4

STAT1 (+)

from -300 to +1

OCT1 (b)

from -500 to +1

1.3

  1. *b (both) - any direction of a site; + forward DNA strand; - reverse DNA strand;
  2. ** Location of a site with respect to the TSS
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BMC Bioinformatics

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