Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_23070

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, 880

Length: 1467
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33


Found at i:750 original size:105 final size:105

Alignment explanation


    Indices: 579--784  Score: 290
    Period size: 105  Copynumber: 2.0  Consensus size: 105

        569 TCACGTATAA

                                                    *      *             *   
        579 TATATTGATAGATGCACATTGCAAGAAGAGGATGATTTCTGAAGCTGTAGATACTGTTGATGCAA
          1 TATATTGATAGATGCACATTGCAAGAAGAGGATGATTTCTAAAGCTGAAGATACTGTTGATACAA

                    *                               
        644 TGAGAAAGCAAGGCATTGAACCTAATGTTGTCACATTCAG
         66 TGAGAAAGAAAGGCATTGAACCTAATGTTGTCACATTCAG

                   * *                          *                  *         
        684 TATATTGGTTGATGCACATTGC-A-AAGAGGGAATGGTTTCTAAAGCTGAAGATATTGTTGATAC
          1 TATATTGATAGATGCACATTGCAAGAAGA-GG-ATGATTTCTAAAGCTGAAGATACTGTTGATAC

                                 *   *            
        747 AATGAGAAAGAAAGGCATTGAGCCTGATGTTGTCACAT
         64 AATGAGAAAGAAAGGCATTGAACCTAATGTTGTCACAT

        785 ATAATGCATT


Statistics
Matches: 89,  Mismatches: 10, Indels: 4
        0.86            0.10        0.04

Matches are distributed among these distances:
 103    4  0.04
 104    3  0.03
 105   82  0.92

ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29


Consensus pattern (105 bp):   
TATATTGATAGATGCACATTGCAAGAAGAGGATGATTTCTAAAGCTGAAGATACTGTTGATACAA
TGAGAAAGAAAGGCATTGAACCTAATGTTGTCACATTCAG

Done.