Tool
|
Predicted genes
|
Missing exons1
|
Wrong exons2
|
Exon sens. %
|
Exon sens. (ov.)3 %
|
Exon spec. %
|
Nucl. sens. %
|
Nucl. spec. %
|
Execution time per prot. seq.
|
---|
Scipio 1.54
|
16
|
11
|
6
|
93.4
|
99.1
|
93.3
|
98.7
|
99.8
|
70 m 46s
|
Exonerate5
|
2145
|
6
|
5669
|
94.8
|
99.5
|
16.5
|
99.7
|
18.5
|
123 m 23s
|
Exonerate6
|
16
|
287
|
62
|
73.4
|
76.1
|
90.2
|
76.1
|
94.3
|
121 m 27s
|
Augustus7
|
1374928
|
0
|
3909434
|
47.9
|
100.0
|
0.0
|
100.0
|
0.3
|
> 10 days
|
BLAT8
|
-
|
9
|
264228
|
19.6
|
99.3
|
0.1
|
97.4
|
2.6
|
7 m 24s
|
Scipio 1.04
|
16
|
14
|
46
|
86.1
|
98.8
|
83.2
|
97.9
|
99.4
|
8 m 24s
|
- 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 Parameters: --model protein2genome
- 6 Parameters: --model protein2genome --bestn 1
- 7 Parameters: --species = human --genemodel = exactlyone (for more parameters see Additional file 5)
- 8 Parameters as in 4: -tileSize = 7 -minIdentity = 54 -minScore = 15 -oneOff = 1