Table 3 The number of the full set alignments at various levels of the overall identity. Fractions give the differences in the number of alignments by each method and Splign expressed as percentage of the total of sequences in the set.
From: Splign: algorithms for computing spliced alignments with identification of paralogs
| Â | 80% | 85% | 90% | 95% | 99% | 99.5% | 99.9% | 100% |
|---|---|---|---|---|---|---|---|---|
Splign | 212875 | 209895 | 203460 | 195939 | 182123 | 169058 | 107267 | 76542 |
Sim4 | 212533 | 208571 | 203016 | 195513 | 177784 | 162761 | 97812 | 69359 |
| Â | -0.16 | -0.61 | -0.20 | -0.19 | -1.98 | -2.88 | -4.32 | -3.29 |
Spidey | 199870 | 195159 | 190753 | 186356 | 172385 | 159021 | 100338 | 72225 |
| Â | -5.95 | -6.74 | -5.81 | -4.38 | -4.45 | -4.59 | -3.17 | -1.97 |
BLAT | 209899 | 206260 | 201207 | 194640 | 177345 | 163157 | 104338 | 74815 |
| Â | -1.36 | -1.66 | -1.03 | -0.59 | -2.19 | -2.70 | -1.34 | -0.79 |
GMAP | 208849 | 205793 | 202732 | 196734 | 180048 | 166488 | 105452 | 74975 |
| Â | -1.84 | -1.88 | -0.33 | +0.36 | -0.95 | -1.18 | -0.83 | -0.72 |
SPA | 203942 | 199548 | 195926 | 192595 | 180273 | 167815 | 105835 | 74911 |
| Â | -4.09 | -4.73 | -3.45 | -1.53 | -0.85 | -0.57 | -0.65 | -0.75 |