Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_29013

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, 693

Length: 1155
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26


Found at i:1009 original size:15 final size:15

Alignment explanation


    Indices: 991--1026  Score: 54
    Period size: 15  Copynumber: 2.4  Consensus size: 15

        981 TGATGAAAGG

                     *     
        991 GAAGAACAAGAACAA
          1 GAAGAACAACAACAA

                        *  
       1006 GAAGAACAACAAGAA
          1 GAAGAACAACAACAA

                  
       1021 GAAGAA
          1 GAAGAA

       1027 GATGATGATG


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  15   19  1.00

ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00


Consensus pattern (15 bp):   
GAAGAACAACAACAA

Found at i:1033 original size:3 final size:3

Alignment explanation


    Indices: 1027--1064  Score: 76
    Period size: 3  Copynumber: 12.7  Consensus size: 3

       1017 AGAAGAAGAA

                                                              
       1027 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
          1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA

       1065 GAATGGAGGT


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   35  1.00

ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32


Consensus pattern (3 bp):   
GAT

Done.