2.5 Algorithm for finding maximal tandem repetitions G. Kucherov R. Kolpakov, G. Kucherov, Finding maximal repetitions in a word in linear time, 1999 Symposium on Foundations of Computer Science (FOCS), New-York (USA), pp. 596-604, IEEE Computer Society R. Kolpakov, G. Kucherov, Finding Approximate Repetitions under Hamming Distance, 9-th European Symposium on Algorithms (ESA), Århus (Denmark), Lecture Notes in Computer Science, vol. 2161, pp 170-181. nucleic:motifs nucleic:repeats motifs mreps mreps perl mreps 0 query Query Sequence file perl " -fasta $value" 20 8 err Specifies the resolution (error level) (-res) perl (defined $value ) ? " -res $value" : "" 10 from Specifies starting position (-from) perl (defined $value) ? " -from $value" : "" 10 to Specifies end position (-to) perl (defined $value) ? " -to $value" : "" 10 win Processes by sliding windows of size 2*n overlaping by n (-win) perl (defined $value) ? " -win $value" : "" 10 minsize Report repetitions whose size is at least n (-minsize) perl (defined $value) ? " -minsize $value" : "" 10 maxsize Report repetitions whose size is at most n (-maxsize) perl (defined $value) ? " -maxsize $value" : "" 10 minperiod Report repetitions whose period is at least n (-minperiod) perl (defined $value) ? " -minperiod $value" : "" 10 maxperiod Report repetitions whose period is at most n (-maxperiod) perl (defined $value) ? " -maxperiod $value" : "" 10 exp Report repetitions whose exponent is at least n (-exp) perl (defined $value) ? " -exp $value" : "" 10 small Output small repeats that can occur randomly (-allowsmall) perl (defined $value) ? " -allowsmall" : "" 10 noprint Do not output repetitions sequences (-noprint) perl (defined $value) ? " -noprint" : "" 10 xml XML format output file name (-xmloutput) perl (defined $value) ? " -xmloutput $value" : "" 10