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Table 5 Comparison of published gene models to SnowyOwl predictions

From: SnowyOwl: accurate prediction of fungal genes by using RNA-Seq and homology information to select among ab initio models

 

A. niger

P. chrysosporium

Similarity to SnowyOwl

Number

Structural defects*

Conflicts with RNA-Seq†

Number

Structural defects*

Conflicts with RNA-Seq†

Identical

6868

0

0

1396

0

0

Identical except at start

1249

58 (4.6%)

438 (35.1%)

864

97 (11.2%)

216 (27.0%)

Different, > 5% overlap

2755

322 (11.7%)

1246 (45.2%)

6936

1924 (27.7%)

3750 (54.1%)

Different, < 5% overlap

1038

393 (37.9%)

376 (36.2%)

852

275 (32.3%)

442 (51.9%)

Total

11910

773 (6.5%)

2060 (17.3%)

10048

2296 (22.9%)

4408 (43.9%)

  1. *Invalid coding sequences, short predicted proteins, introns with nonstandard donor-acceptor pairs.
  2. †Predicted introns not matching read splice sites, models with discontinuous read coverage.
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BMC Bioinformatics

ISSN: 1471-2105

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