Table 3 Summary of comparison on results between global alignment, local alignment without gap penalty and local alignment with affine gap penalty when setting the threshold which allows 5% or 10% of false positives.
From: Local structural alignment of RNA with affine gap model
Family | Number of members | Number of misses | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Â | Â | False positive rate=5% | Â | False positive rate=10% | ||||||
| Â | Â | Gotohscan | Global | Local | Local with affine gap | Â | Gotohscan | Global | Local | Local with affine gap |
RF00014 | 96 | 2 | 0 | 0 | 0 | Â | 2 | 0 | 0 | 0 |
RF00021 | 100 | 10 | 1 | 1 | 1 | Â | 10 | 1 | 1 | 1 |
RF00022 | 100 | 51 | 9 | 5 | 2 | Â | 35 | 4 | 4 | 2 |
RF00027 | 100 | 100 | 3 | 5 | 0 | Â | 100 | 2 | 2 | 0 |
RF00032 | 100 | 59 | 0 | 0 | 0 | Â | 37 | 0 | 0 | 0 |
RF00033 | 100 | 27 | 1 | 25 | 24 | Â | 26 | 1 | 1 | 24 |
RF00034 | 100 | 71 | 1 | 0 | 0 | Â | 71 | 1 | 0 | 0 |
RF00038 | 100 | 88 | 0 | 0 | 0 | Â | 88 | 0 | 0 | 0 |
RF00039 | 100 | 100 | 0 | 0 | 0 | Â | 100 | 0 | 0 | 0 |
RF00042 | 100 | 10 | 0 | 0 | 0 | Â | 10 | 0 | 0 | 0 |
RF00043 | 21 | 3 | 0 | 0 | 0 | Â | 3 | 0 | 0 | 0 |
RF00044 | 8 | 1 | 0 | 0 | 0 | Â | 1 | 0 | 0 | 0 |
RF00046 | 76 | 9 | 0 | 0 | 0 | Â | 9 | 0 | 0 | 0 |
RF00048 | 100 | 11 | 0 | 0 | 0 | Â | 11 | 0 | 0 | 0 |
RF00386 | 100 | 88 | 58 | 56 | 1 | Â | 88 | 48 | 38 | 1 |
RF00643 | 100 | 98 | 1 | 4 | 0 | Â | 98 | 0 | 2 | 0 |
RF00661 | 100 | 100 | 87 | 66 | 23 | Â | 100 | 81 | 52 | 14 |
RF01051 | 100 | 100 | 79 | 85 | 47 | Â | 100 | 79 | 81 | 39 |