The score for the match of a position in a sequence to a motif is computed by by summing the appropriate entries from each column of the position-dependent scoring matrix that represents the motif.
The p-value of a motif occurrence is defined as the probability of a random sequence of the same length as the motif matching that position of the sequence with as good or better a score.
The q-value of a motif occurrence is defined as the false discovery rate if the occurrence is accepted as significant. See Storey JD, Tibshirani R. Statistical significance for genome-wide studies. Proc. Natl Acad. Sci. USA (2003) 100:9440–9445
The table is sorted by increasing p-value.
If the start position is larger then the end position, the motif occurrence is on the reverse strand.
| Pattern Name | Sequence Name | Start | Stop | Score | p-value | q-value | Matched Sequence |
|---|---|---|---|---|---|---|---|
| 1 | ara | 58 | 76 | 19.377 | 8.8e-08 | 0.000276 | TTTGCACGGCGTCACACTT |
| 1 | ce1cg | 64 | 82 | 17.3612 | 6.39e-07 | 0.000548 | TTTGATCGTTTTCACAAAA |
| 1 | gale | 45 | 63 | 17.2652 | 6.95e-07 | 0.000548 | TTTATTCCATGTCACACTT |
| 1 | ompa | 51 | 69 | 17.1693 | 7.56e-07 | 0.000548 | CCTGACGGAGTTCACACTT |
| 1 | bglr1 | 79 | 97 | 16.8813 | 9.68e-07 | 0.000548 | TGTGAGCATGGTCATATTT |
| 1 | malt | 59 | 41 | 16.7853 | 1.05e-06 | 0.000548 | TTTGCACTGTGTCACAATT |
| 1 | crp | 66 | 84 | 16.0174 | 1.95e-06 | 0.000788 | TGCAAAGGACGTCACATTA |
| 1 | deop2 | 10 | 28 | 15.9214 | 2.1e-06 | 0.000788 | TTTGAACCAGATCGCATTA |
| 1 | cya | 68 | 50 | 15.8254 | 2.26e-06 | 0.000788 | CGTGATCAATTTAACACCT |
| 1 | male | 17 | 35 | 15.3455 | 3.24e-06 | 0.000924 | TGTAACAGAGATCACACAA |
| 1 | tnaa | 74 | 92 | 15.3455 | 3.24e-06 | 0.000924 | TGTGATTCGATTCACATTT |
| 1 | deop2 | 78 | 60 | 14.7695 | 4.9e-06 | 0.00118 | TTCGATACACATCACAATT |
| 1 | lac | 12 | 30 | 14.7695 | 4.9e-06 | 0.00118 | TGTGAGTTAGCTCACTCAT |
| 1 | pbr322 | 71 | 53 | 14.0976 | 7.73e-06 | 0.00173 | TGTGCGGTATTTCACACCG |
| 1 | tdc | 79 | 97 | 13.1377 | 1.42e-05 | 0.00297 | TTTGTGAGTGGTCGCACAT |
| 1 | uxu1 | 20 | 38 | 12.2738 | 2.37e-05 | 0.00435 | TGTGATGTGGTTAACCCAA |
| 1 | trn9cat | 102 | 84 | 12.2738 | 2.37e-05 | 0.00435 | GCCGATCAACGTCTCATTT |
| 1 | ilv | 42 | 60 | 12.1778 | 2.5e-05 | 0.00435 | CGTGATCAACCCCTCAATT |
| 1 | malk | 79 | 61 | 11.3139 | 4.01e-05 | 0.00661 | TGCAAGCAACATCACGAAA |
| 1 | gale | 27 | 45 | 10.738 | 5.4e-05 | 0.00845 | TGTAAACGATTCCACTAAT |
| 2 | ilv | 5 | 12 | 15.7824 | 6.67e-06 | 0.0235 | CGGCGGGG |
| 2 | male | 41 | 48 | 15.5214 | 1.48e-05 | 0.0261 | CGGTGGGG |
| 3 | ce1cg | 24 | 33 | 19.4506 | 5.03e-07 | 0.00174 | GCATCGGGCG |
| 3 | pbr322 | 93 | 102 | 19.1896 | 1.12e-06 | 0.00193 | GCATCAGGCG |