Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_00183

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: 1704
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24


Found at i:470 original size:96 final size:96

Alignment explanation


    Indices: 332--539  Score: 231
    Period size: 96  Copynumber: 2.2  Consensus size: 96

        322 GATGGCGGCG

                *    *     *  *                                          *   
        332 CCACTGCTTATGAAGTTGGTCAATTCTTCACGCAGGAGGAAAATATTTATAACCAAAAT-AGCGT
          1 CCACCGCTTTTGAAGGTGATCAATTCTTCACGCAGGAGGAAAATATTTATAA-CAAAATCAACGT

                     *                       
        396 TCTAAATTCTACAGTTGCTTCGAACATCGACG-
         65 TCTAAATTCCACAGTTGCTTCGAACATCGA-GA

            * *                   *      *       *      *       **  *    *   
        428 TCGCCGCTTTTGAAGGTGATCAGTTCTTCTCGCAGGATGAAAATTTTTATAATGAACTCAATGTT
          1 CCACCGCTTTTGAAGGTGATCAATTCTTCACGCAGGAGGAAAATATTTATAACAAAATCAACGTT

                *                          
        493 CTAAGTTCCACAGTTGCTTCGAACATCGAGA
         66 CTAAATTCCACAGTTGCTTCGAACATCGAGA

                            
        524 CCACCGCTTTTGAAGG
          1 CCACCGCTTTTGAAGG

        540 AGGTGAAACC


Statistics
Matches: 91,  Mismatches: 19, Indels: 4
        0.80            0.17        0.04

Matches are distributed among these distances:
  95    4  0.04
  96   87  0.96

ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31


Consensus pattern (96 bp):   
CCACCGCTTTTGAAGGTGATCAATTCTTCACGCAGGAGGAAAATATTTATAACAAAATCAACGTT
CTAAATTCCACAGTTGCTTCGAACATCGAGA
Done.