From: Sigma: multiple alignment of weakly-conserved non-coding DNA sequence
 |  | q = 0.35 | q = 0.45 | q = 0.55 | q = 0.65 | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
No embedded WM's | |||||||||||||||||
N s | Prog | N + | N - | Sen | Er | N + | N - | Sen | Er | N + | N - | Sen | Er | N + | N - | Sen | Er |
3 | sigma+ | 0 | 0 | 0.00 | N/A | 166 | 0 | 0.01 | 0.00 | 3210 | 0 | 0.11 | 0.00 | 28755 | 0 | 0.96 | 0.00 |
 | sigma- | 0 | 0 | 0.00 | N/A | 761 | 0 | 0.03 | 0.00 | 10737 | 0 | 0.36 | 0.00 | 29606 | 0 | 0.99 | 0.00 |
 | dialign | 0 | 0 | 0.00 | N/A | 266 | 0 | 0.03 | 0.00 | 854 | 0 | 0.04 | 0.00 | 9115 | 0 | 0.30 | 0.00 |
 | alignm | 320 | 136 | 0.01 | 0.30 | 6009 | 846 | 0.20 | 0.12 | 22710 | 1083 | 0.76 | 0.05 | 28258 | 434 | 0.94 | 0.02 |
 | clustalw | 15244 | 14756 | 0.51 | 0.49 | 25659 | 4341 | 0.86 | 0.14 | 28959 | 1041 | 0.97 | 0.03 | 29779 | 221 | 0.99 | 0.01 |
 | mlagan | 13691 | 16309 | 0.46 | 0.54 | 24766 | 5234 | 0.83 | 0.17 | 29596 | 404 | 0.99 | 0.01 | 30000 | 0 | 1.00 | 0.00 |
 | tcoffee | 3781 | 26219 | 0.13 | 0.87 | 15253 | 14747 | 0.51 | 0.49 | 26542 | 3458 | 0.88 | 0.12 | 29759 | 241 | 0.99 | 0.01 |
6 | sigma+ | 74 | 0 | 0.00 | 0.00 | 334 | 0 | 0.01 | 0.00 | 27765 | 24 | 0.46 | 0.00 | 57820 | 0 | 0.96 | 0.00 |
 | sigma - | 74 | 112 | 0.00 | 0.60 | 590 | 0 | 0.01 | 0.00 | 42882 | 40 | 0.71 | 0.00 | 58948 | 0 | 0.98 | 0.00 |
 | dialign | 66 | 158 | 0.00 | 0.71 | 604 | 176 | 0.01 | 0.23 | 7364 | 114 | 0.12 | 0.02 | 30871 | 0 | 0.51 | 0.00 |
 | alignm | 0 | 0 | 0.00 | N/A | 7192 | 123 | 0.12 | 0.02 | 53534 | 978 | 0.89 | 0.02 | 59326 | 222 | 0.99 | 0.00 |
 | clustalw | 29878 | 30122 | 0.50 | 0.50 | 52295 | 7705 | 0.87 | 0.13 | 57712 | 2288 | 0.96 | 0.04 | 59580 | 420 | 0.99 | 0.01 |
 | mlagan | 17411 | 42589 | 0.29 | 0.71 | 48105 | 11895 | 0.80 | 0.20 | 58736 | 1264 | 0.98 | 0.02 | 60000 | 0 | 1.00 | 0.00 |
 | tcoffee | 13215 | 46785 | 0.22 | 0.78 | 41965 | 18035 | 0.70 | 0.30 | 58084 | 1916 | 0.97 | 0.03 | 59925 | 75 | 1.00 | 0.00 |
9 | sigma+ | 0 | 0 | 0.00 | N/A | 597 | 0 | 0.01 | 0.00 | 41873 | 40 | 0.47 | 0.00 | 87769 | 0 | 0.98 | 0.00 |
 | sigma - | 160 | 64 | 0.00 | 0.29 | 2577 | 162 | 0.03 | 0.06 | 63579 | 228 | 0.71 | 0.00 | 88764 | 0 | 0.99 | 0.00 |
 | dialign | 78 | 264 | 0.00 | 0.77 | 1045 | 228 | 0.01 | 0.18 | 12162 | 176 | 0.14 | 0.01 | 54753 | 0 | 0.61 | 0.00 |
 | alignm | 44 | 159 | 0.00 | 0.78 | 29033 | 460 | 0.32 | 0.02 | 83545 | 960 | 0.93 | 0.01 | 89261 | 330 | 0.99 | 0.00 |
 | clustalw | 52761 | 37239 | 0.59 | 0.41 | 79733 | 10267 | 0.89 | 0.11 | 86758 | 3242 | 0.96 | 0.04 | 89429 | 571 | 0.99 | 0.01 |
 | mlagan | 16445 | 73555 | 0.18 | 0.82 | 68421 | 21579 | 0.76 | 0.24 | 88828 | 1172 | 0.99 | 0.01 | 90000 | 0 | 1.00 | 0.00 |
 | tcoffee | 27005 | 62995 | 0.30 | 0.70 | 67009 | 22991 | 0.74 | 0.26 | 88534 | 1466 | 0.98 | 0.02 | 89955 | 45 | 1.00 | 0.00 |