Detecting and analyzing DNA sequencing errors: toward a higher quality of the Bacillus subtilis genome sequence.

ABSTRACT: During the determination of a DNA sequence, the introduction of artifactual frameshifts and/or in-frame stop codons in putative genes can lead to misprediction of gene products. Detection of such errors with a method based on protein similarity matching is only possible when related sequences are available in databases. Here, we present a method to detect frameshift errors in DNA sequences that is based on the intrinsic properties of the coding sequences. It combines the results of two analyses, the search for translational initiation/termination sites and the prediction of coding regions. This method was used to screen the complete Bacillus subtilis genome sequence and the regions flanking putative errors were resequenced for verification. This procedure allowed us to correct the sequence

SUBMITTER: Medigue C 

PROVIDER: S-EPMC310837 | biostudies-literature | 1999 Nov

REPOSITORIES: biostudies-literature