Gene Prediction Accuracy in the MIT Data Set
| Program | Nucleotide | Exon | ||||||
| Sn | Sp | CC | Sn | Sp | (Sn+Sp)/2 | ME | WE | |
| GENSCAN | 0.98 | 0.89 | 0.93 | 0.82 | 0.75 | 0.78 | 0.06 | 0.13 |
| ROSSETA | 0.95 | 0.97 | — | — | — | — | 0.02 | 0.03 |
| TBLASTX default | 0.94 | 0.79 | 0.85 | — | — | — | 0.13 | 0.13 |
| SGP2 (single complete genes) | 0.97 | 0.98 | 0.97 | 0.84 | 0.85 | 0.84 | 0.05 | 0.03 |
| SGP2 (multiple genes) | 0.96 | 0.97 | 0.96 | 0.71 | 0.79 | 0.75 | 0.12 | 0.03 |