Table 6 E. coli SSU rRNA with a length of approximately 1600 nucleotides is beyond the reach of many structure prediction algorithms such as RNAforester and Dynalign. The minimum free energy methods, however, can produce results.
From: A comprehensive comparison of comparative RNA structure prediction approaches
| Â | E. coli SSU rRNA: Single Sequence Methods | ||||
|---|---|---|---|---|---|
Algorithm | number of bps in reference | number of bps in prediction | True Positives (% sensitivity) | False Positives (% selectivity) | Correlation (%) |
RNAfold | 468 | 493 | 207 (44.2) | 271 (43.3) | 0.437 (43.8) |
Mfold (1) | 468 | 480 | 240 (51.3) | 224 (51.7) | 0.515 (51.5) |
Mfold (2) | 468 | 487 | 242 (51.7) | 229 (51.4) | 0.515 (51.5) |
Mfold (3) | 468 | 487 | 202 (43.2) | 273 (42.5) | 0.428 (42.8) |
Sfold (1) | 468 | 481 | 232 (49.6) | 229 (50.3) | 0.499 (49.9) |
Sfold (2) | 468 | 499 | 231 (49.4) | 249 (48.1) | 0.487 (48.7) |
Sfold (3) | 468 | 475 | 232 (49.6) | 230 (50.2) | 0.498 (49.9) |