A Database of Potential Reading Frame Shifts in Coding Sequences from Different Eukaryotic Genomes

Abstract

Abstract—A new data bank containing potential reading frame shifts was developed. A new mathematical method based on the use of the genetic algorithm and dynamic programming was used to search for potential reading frame shifts. The data bank includes coordinates of potential reading frame shifts for coding sequences of 76 eukaryotic genomes from the Ensembl genome browser version 86. The database is located at: http://victoria.biengi.ac.ru/cgi-bin/frameshift/index.cgi. Among all the analyzed genomes approximately 23% of the coding sequences have a reading frame shift. Type I and type II errors are at levels of approximately 11 and 30%. A Web server to search for potential reading frame shifts, which is located at: http://victoria.biengi.ac.ru/fsfinder, was developed simultaneously with the data bank. The server can be used to search for potential reading frame shifts in newly defined coding sequences.