All candidates with a score above a preset threshold are maintained. The raw list of exons is then organized into clusters. Each cluster is filtered for repetitives. Candidates flagged as repetitive elements are eliminated. One could also mask a sequence for repetitives prior to submitting it to GrailEXP's exon prediction program, but this is not recommended and may lead to the loss of legitimate exons.
All indexing is from the forward strand perspective.
A cluster id, for those interested in clusters. Ignored by the programs that read in exon files. In the other programs that read in exon files, all exons with a nonzero status field are ignored. Ignored by the programs that read in exon files. The fields are separated by spaces.