Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_00403

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, 253

Length: 423
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24


Found at i:317 original size:168 final size:168

Alignment explanation


    Indices: 77--407  Score: 518
    Period size: 168  Copynumber: 2.0  Consensus size: 168

         67 CCCTCGCAGA

                             *              *           *           *  *     
         77 TTGTTTTTGGGTCATTTTCTGACATGCCAGCTGACGTATTCTATGATTCAACATTCGACGAAGCA
          1 TTGTTTTTGGGTCATTTGCTGACATGCCAGCTCACGTATTCTATCATTCAACATTCAACCAAGCA

            *                  *           *             *    *              
        142 CCACCTTCCAAGGTGGCCCGTGTCTCACCTCGTCCACCTGCACCTTCAGCCCCGGCAGGGGCTTC
         66 ACACCTTCCAAGGTGGCCCATGTCTCACCTCCTCCACCTGCACCTCCAGCACCGGCAGGGGCTTC

                                                  
        207 TGAAAATGTGGCCAAAGATGATGAGAAACCAAACAAGT
        131 TGAAAATGTGGCCAAAGATGATGAGAAACCAAACAAGT

                         *    *       *   *                                  
        245 TTGTTTTTGGGTCGTTTGGTGACATGTCAGGTCACGTATTCTATCATTCAACATTCAACCAAGCA
          1 TTGTTTTTGGGTCATTTGCTGACATGCCAGCTCACGTATTCTATCATTCAACATTCAACCAAGCA

                                                 *                          *
        310 ACACCTTCCAAGGTGGCCCATGTCTCACCTCCTCCACTTGCACCTCCAGCACCGGCAGGGGCTTT
         66 ACACCTTCCAAGGTGGCCCATGTCTCACCTCCTCCACCTGCACCTCCAGCACCGGCAGGGGCTTC

                                             
        375 TGAAAATGTGGCCAAAGATGATGAGAAACCAAA
        131 TGAAAATGTGGCCAAAGATGATGAGAAACCAAA

        408 AAATGCTAAA


Statistics
Matches: 147,  Mismatches: 16, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
 168  147  1.00

ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26


Consensus pattern (168 bp):   
TTGTTTTTGGGTCATTTGCTGACATGCCAGCTCACGTATTCTATCATTCAACATTCAACCAAGCA
ACACCTTCCAAGGTGGCCCATGTCTCACCTCCTCCACCTGCACCTCCAGCACCGGCAGGGGCTTC
TGAAAATGTGGCCAAAGATGATGAGAAACCAAACAAGT
Done.