The program STAR (Search for Tandem Approximate Repeats) searches for significant Approximate Tandem Repeats (ATR) of a given motif in a DNA sequence. For each region of the sequence that is similar to a tandem repeat of the input motif, STAR returns a description of the segment that it calls a “Zone”, and an optimal alignment of the zone with the best possible Exact Tandem Repeat. (Here, exact means perfect.) STAR optimally detects all such zones in the sequence.
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“STAR: an algorithm to Search for Tandem Approximate Repeats.”
Delgrange O. and Rivals E.
Bioinformatics. 2004 20(16):2812-2820.