| Â | Annotated CDSb | GLIMMER | GENESCAN | TESTCODE | CODON USAGE |
|---|
| Â | Â | FPc | FNd | FP | FN | FP | FN | FP | FN |
Chr1 | 79 | 131 | 0 | 61 | 1 | 68 | 33 | 75 | 4 |
Chr3 | 94(1) | 116 | 1 | 57 | 5 | 119 | 51 | 108 | 8 |
Chr4 | 123 | 328 | 1 | 97 | 6 | 130 | 56 | 139 | 9 |
Total
|
295
|
575
|
2
|
215
|
12
|
317
|
180
|
322
|
21
|
EDR
e
| 1.96 | 0.77 | 1.68 | 1.16 |
- a All possible ORFs (i.e. starting with an ATG and ending with TAA, TAG or TGA) of >300 bp in the three chromosome sequence were scored by each of the programs. GLIMMER predictions (for ORFs > 100 amino acids, with default settings) were taken straight from the trained software. For GENESCAN and TESTCODE, ORFs were considered to be positive if the average score for the ORF exceeded a threshold of 4.0 and 9.7, respectively. For overlapping ORFs on the same strand, that with the highest score was chosen. In case of CODON USAGE, ORFs were predicted as coding when the average in-frame score was higher than the two out-of-frame scores. b The number of CDS of more than 300 bp in GenBank Accession numbers AE001274 (chr1), AC125735 (chr3), AL389894 and AL139794 (chr4). The number of annotated CDS of <300 bp are shown in parentheses. c False positives d False negatives e Error Discovery Rate (EDR) = (FN+FP)/(CDS)
