Tool | Pred. genes | Missing exons1 | Wrong exons2 | Exon sens. % | Exon sens. (ov.)3 % | Exon spec. % | Nucl. sens. % | Nucl. spec. % |
---|
Scipio 1.54 | 16 | 13 | 6 | 93.1 | 98.9 | 93.1 | 98.6 | 99.8 |
Scipio 1.55 | 16 | 4 | 7 | 94.7 | 99.7 | 93.7 | 99.2 | 99.8 |
Prosplign6 | 16 | 1 | 41 | 95.7 | 99.9 | 92.6 | 99.9 | 98.7 |
Exonerate7 | 32 | 7 | 6 | 94.8 | 99.4 | 94.6 | 99.6 | 99.5 |
Exonerate8 | 16 | 255 | 4 | 75.7 | 78.8 | 95.6 | 79.2 | 99.7 |
Prot_map9 | 16 | 4 | 27 | 91.7 | 99.7 | 86.2 | 99.3 | 99.7 |
Fgenesh+10 | 16 | 10 | 10 | 94.9 | 99.2 | 94.8 | 99.0 | 99.7 |
Wise211 | 39 | 3 | 16 | 93.3 | 99.8 | 91.2 | 99.7 | 98.9 |
Augustus12 | 16 | 132 | 111 | 81.9 | 89.0 | 83.2 | 89.9 | 88.7 |
Fgenesh10 | 161 | 111 | 342 | 80.2 | 90.8 | 67.3 | 91.8 | 62.3 |
Genscan13 | 194 | 138 | 520 | 76.3 | 88.5 | 57.9 | 90.4 | 55.3 |
BLAT14 | - | 16 | 19 | 19.9 | 98.7 | 19.4 | 97.0 | 98.9 |
Scipio 1.04 | 16 | 16 | 10 | 86.2 | 98.7 | 85.9 | 97.8 | 99.8 |
- 1 Number of annotated exons, which are not overlapped by any predicted exon
- 2 Number of predicted exons, which are not overlapped by any annotated exon
- 3 Number annotated exons, which are overlapped by at least one predicted exon divided by the number of annotated exons
- 4 Mammalia cross species default options (for detailed parameters see Additional file 5)
- 5 Mammalia cross species default options; -tileSize = 6 (for detailed parameters see Additional file 5)
- 6 Parameters: -full -two_stages
- 7 Parameters: --model protein2genome
- 8 Parameters: --model protein2genome --bestn 1
- 9 Similarity: Weak; Search for one best alignment only (for more parameters see Additional file 5)
- 10 Organism: Human
- 11 Parameters: -both
- 12 Parameters: --species = human --genemodel = exactlyone (for more parameters see Additional file 5)
- 13 Organism: Vertebrate; Suboptimal exon cutoff: 1.00
- 14 Parameters as in 4: -tileSize = 7 -minIdentity = 54 -minScore = 15 -oneOff = 1