Table 2.
Percentage of simulation runs indicating matches between planted and identified motifs pertaining to case-control data set 2, and the significance levels of the identified motifs
|
|
|
|
RR |
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 2.0
|
1.5
|
1.2
|
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| Number of matchesa |
Number of matches
|
Number of matches
|
|||||||||||||||||||||||||||||||||||||||||||||||
| Planted Motif length
|
μ1 |
No. of polymorphic sites
|
0
|
1
|
2
|
3
|
4
|
5
|
6
|
p-value
|
0
|
1
|
2
|
3
|
4
|
5
|
6
|
p-value
|
0
|
1
|
2
|
3
|
4
|
5
|
6
|
p-value
|
|||||||||||||||||||||||
| 100 | 0 | 0 | 0 | 0 | 100 | — | — | <10-7 | 0 | 0 | 0 | 55.2 | 44.8 | — | — | 0.007 | 43.5 | 33.9 | 12.2 | 10.4 | 0 | — | — | 0.522 | |||||||||||||||||||||||||
| 0.2 | 200 | 0 | 0 | 0 | 0 | 100 | — | — | <10-7 | 0 | 0 | 0 | 57.4 | 42.6 | — | — | 0.008 | 46.8 | 31.5 | 12.7 | 9.0 | 0 | — | — | 0.481 | ||||||||||||||||||||||||
| 300 | 0 | 0 | 0 | 0 | 100 | — | — | <10-7 | 0 | 0 | 0 | 60.3 | 39.7 | — | — | 0.011 | 49.2 | 35.8 | 10.1 | 4.9 | 0 | — | — | 0.497 | |||||||||||||||||||||||||
| 4 | |||||||||||||||||||||||||||||||||||||||||||||||||
| 100 | 0 | 0 | 0 | 0 | 100 | — | — | <10-7 | 0 | 0 | 0 | 56.1 | 43.9 | — | — | 0.011 | 25.3 | 31.6 | 28.1 | 14.8 | 0.2 | — | — | 0.927 | |||||||||||||||||||||||||
| 0.4 | 200 | 0 | 0 | 0 | 0 | 100 | — | — | <10-7 | 0 | 0 | 0 | 56.8 | 43.2 | — | — | 0.011 | 28.1 | 32.2 | 25.7 | 13.9 | 0.1 | — | — | 0.931 | ||||||||||||||||||||||||
| 300 | 0 | 0 | 0 | 0 | 100 | — | — | <10-7 | 0 | 0 | 0 | 59.1 | 40.9 | — | — | 0.013 | 28.8 | 33.6 | 24.1 | 13.4 | 0.1 | — | — | 0.919 | |||||||||||||||||||||||||
| 100 | 0 | 0 | 0 | 0 | 0 | 0 | 100 | <10-7 | 0 | 8.2 | 13.1 | 23.7 | 35.3 | 18.9 | 0.8 | 0.010 | 19.8 | 37.2 | 21.9 | 18.7 | 2.4 | 0 | 0 | 0.498 | |||||||||||||||||||||||||
| 0.2 | 200 | 0 | 0 | 0 | 0 | 0 | 0 | 100 | <10-7 | 0 | 9.5 | 16.8 | 22.6 | 32.2 | 18.6 | 0.3 | 0.011 | 22.7 | 34.0 | 20.8 | 18.2 | 4.1 | 0 | 0 | 0.489 | ||||||||||||||||||||||||
| 300 | 0 | 0 | 0 | 0 | 0 | 0 | 100 | <10-7 | 0 | 11.2 | 12.1 | 23.9 | 31.9 | 20.6 | 0.3 | 0.013 | 22.8 | 35.3 | 21.6 | 18.6 | 1.7 | 0 | 0 | 0.490 | |||||||||||||||||||||||||
| 6 | |||||||||||||||||||||||||||||||||||||||||||||||||
| 100 | 0 | 0 | 0 | 0 | 13.3 | 56.8 | 29.9 | <10-7 | 0 | 3.2 | 8.1 | 18.6 | 51.2 | 18.5 | 0.4 | 0.017 | 35.2 | 28.3 | 27.6 | 8.3 | 0.6 | 0 | 0 | 0.917 | |||||||||||||||||||||||||
| 0.4 | 200 | 0 | 0 | 0 | 0 | 14.9 | 60.3 | 24.8 | <10-7 | 0 | 3.2 | 8.4 | 16.3 | 52.7 | 18.9 | 0.5 | 0.018 | 36.5 | 25.9 | 28.5 | 8.6 | 0.5 | 0 | 0 | 0.901 | ||||||||||||||||||||||||
|
|
|
300
|
0
|
0
|
0
|
0
|
14.7
|
61.1
|
24.2
|
<10-7
|
0
|
3.7
|
8.9
|
16.1
|
53.0
|
17.9
|
0.4
|
0.021
|
37.8
|
22.7
|
31.9
|
7.3
|
0.3
|
0
|
0
|
0.886
|
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-
↵a Number of matches indicate the number of sites and the nucleotides at the sites that match between the motif identified by the algorithm and the planted motif
