EST-based assessment of gene prediction. A true positive (TP) intron of a predicted gene is defined as that having the same genomic coordinates at the both ends as an EST-supported intron. A false positive (FP) intron is defined as a predicted intron whose genomic region is assigned to be exonic by the EST-mapping results. However, homology-supported true positive introns are counted not as FP but as TP in this analysis. A false negative (FN) intron is defined as an EST-supported intron whose genomic region is assigned to be exonic by the prediction. Sensitivity (blue hatched bar) is defined as 100 *TP/RI, where RI is the total number of EST-supported introns that overlap with the genomic regions predicted to be genic (exon or intron) by the prediction. Specificity (orange shaded bar) is defined as 100 *TP/QI, where QI is the total number of predicted introns that overlap with at least one EST-supported genic area. A false positive rate (red filled square) is defined as 100 *FP/QI, and a false negative rate (blue filled circle) is defined as 100 *FN/RI. (A) P450s. (B) ribosomal proteins.