Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_23068

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, 669

Length: 1116
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34


Found at i:980 original size:105 final size:105

Alignment explanation


    Indices: 834--1116  Score: 311
    Period size: 105  Copynumber: 2.7  Consensus size: 105

        824 ATATTTTTAT

                         * *                             * *   *  *          
        834 ATATAATATATTGATTGATGCACACTT-CAAGGAGGGAATGATTTTTGAAGTTCTAGATATTGTT
          1 ATATAATATATTGGTAGATGCACA-TTGCAAGGAGGGAATGATTTCTAAAGCTCAAGATATTGTT

                     **                              
        898 AACACAATGGGAAAGCAAGGCATCGAGCCTGATGTTGTCAC
         65 AACACAATGAAAAAGCAAGGCATCGAGCCTGATGTTGTCAC

                 *                *        *                    *           *
        939 ATATAGTATATTGGTAGATGCATATTGCAAGAAGGGAATGATTTCTAAAGCTGAAGATATTGTTG
          1 ATATAATATATTGGTAGATGCACATTGCAAGGAGGGAATGATTTCTAAAGCTCAAGATATTGTTA

               **          *      *                 
       1004 ACAGTATGAAAAAGCTAGGCATTGAGCCTGATGTTGTCAC
         66 ACACAATGAAAAAGCAAGGCATCGAGCCTGATGTTGTCAC

                  *               *                  *  *        *           
       1044 ATATAACATATTGGTTA-ATGCGCATTGCAAGGAGGGAATGGTTCCT-AAGCTGAAGATATTGTT
          1 ATATAATATATTGG-TAGATGCACATTGCAAGGAGGGAATGATTTCTAAAGCTCAAGATATTGTT

            *    *    
       1107 GACACGATGA
         65 AACACAATGA


Statistics
Matches: 150,  Mismatches: 26, Indels: 5
        0.83            0.14        0.03

Matches are distributed among these distances:
 104   27  0.18
 105  121  0.81
 106    2  0.01

ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30


Consensus pattern (105 bp):   
ATATAATATATTGGTAGATGCACATTGCAAGGAGGGAATGATTTCTAAAGCTCAAGATATTGTTA
ACACAATGAAAAAGCAAGGCATCGAGCCTGATGTTGTCAC
Done.