Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_21730

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, 558

Length: 930
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24


Found at i:789 original size:15 final size:16

Alignment explanation


    Indices: 753--790  Score: 53
    Period size: 15  Copynumber: 2.5  Consensus size: 16

        743 GAGCAGTTGC

                            
        753 AGAAGCAGAAGCTGCA
          1 AGAAGCAGAAGCTGCA

              *             
        769 A-TAGCAGAAGCTG-A
          1 AGAAGCAGAAGCTGCA

                    
        783 AGAAGCAG
          1 AGAAGCAG

        791 CAAGAGAGGC


Statistics
Matches: 19,  Mismatches: 2, Indels: 3
        0.79            0.08        0.12

Matches are distributed among these distances:
  14    2  0.11
  15   16  0.84
  16    1  0.05

ACGTcount: A:0.45, C:0.16, G:0.32, T:0.08


Consensus pattern (16 bp):   
AGAAGCAGAAGCTGCA

Found at i:836 original size:21 final size:21

Alignment explanation


    Indices: 812--851  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        802 GAGGTTGCTG

                         *       
        812 AAGCTGATGCAGAGGCAGCGC
          1 AAGCTGATGCAGAAGCAGCGC

                 **            
        833 AAGCTTTTGCAGAAGCAGC
          1 AAGCTGATGCAGAAGCAGC

        852 AATGAAAACT


Statistics
Matches: 16,  Mismatches: 3, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   16  1.00

ACGTcount: A:0.30, C:0.23, G:0.33, T:0.15


Consensus pattern (21 bp):   
AAGCTGATGCAGAAGCAGCGC
Done.