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Abstract Summary: Performance of existing algorithms for similarity-based gene recognition in eukaryotes drops when the genomic DNA has been sequenced with errors. A modification of the spliced alignment algorithm allows for gene recognition in sequences with errors, in particular frameshifts. It tolerates up to 5% of sequencing errors without considerable drop of prediction reliability when a sufficiently close homologous protein is available (normalized evolutionary distance similarity score 50% or higher). Availability: The program is free for academic users and available upon request at http://www.anchorgen.com Contact: mgelfand@anchorgen.com
Mironov et al. (Mon,) studied this question.