ShiftDetector: detection of shift mutations

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Abstract
Motivation: Sequencing of a bi-allelic PCR product, which contains an allele with a deletion/insertion mutation results in a superimposed tracefile following the site of this shift mutation. A trace file of this type hampers the use of current computer programs for base calling. ShiftDetector analyses a sequencing trace file in order to discover if it is a superimposed sequence of two molecules that differ in a shift mutation of 1 to 25 bases. The program calculates a probability score for the existence of such a shift and reconstructs the sequence of the original molecule. Availability: ShiftDetector is available from http://cowry.agri.huji.ac.il Contact: seroussi@agri.huji.ac.il * To whom correspondence should be addressed.