Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_29613

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 2319
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28


Found at i:575 original size:120 final size:120

Alignment explanation


    Indices: 362--602  Score: 455
    Period size: 120  Copynumber: 2.0  Consensus size: 120

        352 AGGTCAGAAG

                                                                             
        362 AAAGGCGGATTGAGCCAGCAAATGTCATTTTTCCTGGGAGACTGACTAATGGTCGAAATGTCAAT
          1 AAAGGCGGATTGAGCCAGCAAATGTCATTTTTCCTGGGAGACTGACTAATGGTCGAAATGTCAAT

                                                     *             
        427 CAGGATCTACGTGGGCCCATATTTTTACAAGGTTCAAGCTCTAATCATAGCCCAC
         66 CAGGATCTACGTGGGCCCATATTTTTACAAGGTTCAAGCTCCAATCATAGCCCAC

                                                         *           *       
        482 AAAGGCGGATTGAGCCAGCAAATGTCATTTTTCCTGGGAGACTGATTAATGGTCGAAGTGTCAAT
          1 AAAGGCGGATTGAGCCAGCAAATGTCATTTTTCCTGGGAGACTGACTAATGGTCGAAATGTCAAT

                                                                   
        547 CAGGATCTACGTGGGCCCATATTTTTACAAGGTTCAAGCTCCAATCATAGCCCAC
         66 CAGGATCTACGTGGGCCCATATTTTTACAAGGTTCAAGCTCCAATCATAGCCCAC

             
        602 A
          1 A

        603 CAATGTGAAT


Statistics
Matches: 118,  Mismatches: 3, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 120  118  1.00

ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27


Consensus pattern (120 bp):   
AAAGGCGGATTGAGCCAGCAAATGTCATTTTTCCTGGGAGACTGACTAATGGTCGAAATGTCAAT
CAGGATCTACGTGGGCCCATATTTTTACAAGGTTCAAGCTCCAATCATAGCCCAC
Done.