Table 3.
Comparison of RNAspa's run-time with that of other methods
| Family | Average run-time per sequence in seconds | ||||
| RNAspa | StemLoc | pmMulti | FoldAlignM | RNAcast | |
| tRNA | 13 | 47 | 21 | 549 | <1 |
| Tymo | 8 | 70 | 12 | 93 | <1 |
| SAM | 13 | 3 | 18 | 248 | <1 |
| Lysine | 20 | 11 | 69 | 1076 | <1 |
| Purine | 84 | 339 | 135 | 1518 | <1 |
| Cobalamin | 133 | 105 | no data | no data | <1 |
| FMN | 56 | 6 | 141 | 5042 | <1 |
| glmS | 58 | 60 | no data | no data | no data |
For all datasets, except glmS which did not yield results, the runtime of RNAcast was less than one second. RNAspa always ran faster than pmMulti and FoldAlignM. In four of eight families it ran faster than StemLoc and its overall running time is better than StemLoc's run-time.