Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_26605

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, 999

Length: 1665
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20


Found at i:436 original size:24 final size:24

Alignment explanation


    Indices: 409--456  Score: 69
    Period size: 24  Copynumber: 2.0  Consensus size: 24

        399 TATGGACGAA

                    *  *            
        409 GATGAAGATGATGAGGAAGAGGAG
          1 GATGAAGAGGAGGAGGAAGAGGAG

                      *             
        433 GATGAAGAGGGGGAGGAAGAGGAG
          1 GATGAAGAGGAGGAGGAAGAGGAG

        457 AAAGAGAGAG


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  24   21  1.00

ACGTcount: A:0.40, C:0.00, G:0.52, T:0.08


Consensus pattern (24 bp):   
GATGAAGAGGAGGAGGAAGAGGAG

Found at i:439 original size:12 final size:12

Alignment explanation


    Indices: 421--456  Score: 54
    Period size: 12  Copynumber: 3.0  Consensus size: 12

        411 TGAAGATGAT

                        
        421 GAGGAAGAGGAG
          1 GAGGAAGAGGAG

              *       * 
        433 GATGAAGAGGGG
          1 GAGGAAGAGGAG

                        
        445 GAGGAAGAGGAG
          1 GAGGAAGAGGAG

        457 AAAGAGAGAG


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  12   20  1.00

ACGTcount: A:0.39, C:0.00, G:0.58, T:0.03


Consensus pattern (12 bp):   
GAGGAAGAGGAG
Done.