Table 1 |
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|
Summary of found motifs similar to known SigR SFBSs |
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|
S. coelicolor consensus: ggaatn18gtt [51] |
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|
|
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|
SIGffRid motif |
R |
LRT |
NU (1) |
%U (2) |
NU∈μ (3) |
|
|
|
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|
in S. coelicolor |
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|
ggaatn16,19gtt |
0.49 |
54.69 |
79 |
0.49 |
32 |
|
|
gggaan18,20cgtt |
0.48 |
42.97 |
58 |
0.48 |
12 |
|
|
|
||||||
|
in S. avermitilis |
||||||
|
ggaatn17,19gttg |
0.51 |
30.98 |
38 |
0.51 |
||
|
ggaatn17,18gttg |
0.60 |
30.59 |
31 |
0.60 |
||
|
gaatn17,18gttg |
0.44 |
25.36 |
40 |
0.45 |
||
|
|
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|
(1) NU is the number of occurrences found in merged sequences (2) %U is the proportion of occurrences found in merged sequences (%U = NU/NG, where NG is the number of occurrences found in the whole genome on direct and reverse strand) (3) NU∈μ is the number of occurrences in merged sequences related to a gene over-expressed in microarray data experiments under oxidative stress conditions, from Paget, personal communication |
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|
Touzain et al. BMC Bioinformatics 2008 9:73 doi:10.1186/1471-2105-9-73 |
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