Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_06539

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, 910

Length: 1518
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27


Found at i:1364 original size:51 final size:51

Alignment explanation


    Indices: 1266--1364  Score: 112
    Period size: 51  Copynumber: 1.9  Consensus size: 51

       1256 TAGAAGACGC

                      *     *  *                 *   *         
       1266 TGATTGTAAGGAGCCTGCATCATCAAAAGATGAAAAGGATGGGGATGCAAG
          1 TGATTGTAAGAAGCCTCCACCATCAAAAGATGAAAAGAATGAGGATGCAAG

                                                        *     
       1317 TGATTGTAAGAAGCCTCCACCATCAGAAA-ATGGAAAA-AATGATGATGC
          1 TGATTGTAAGAAGCCTCCACCATCA-AAAGAT-GAAAAGAATGAGGATGC

       1365 TGATGATGCC


Statistics
Matches: 40,  Mismatches: 6, Indels: 4
        0.80            0.12        0.08

Matches are distributed among these distances:
  51   32  0.80
  52    8  0.20

ACGTcount: A:0.39, C:0.14, G:0.26, T:0.20


Consensus pattern (51 bp):   
TGATTGTAAGAAGCCTCCACCATCAAAAGATGAAAAGAATGAGGATGCAAG
Done.