Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_14101

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, 556

Length: 927
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26


Found at i:771 original size:30 final size:30

Alignment explanation


    Indices: 706--777  Score: 90
    Period size: 30  Copynumber: 2.4  Consensus size: 30

        696 AATAACTCCC

                    *               **    
        706 ACAGCAACTACAACTACAGCAACTGTGACA
          1 ACAGCAACAACAACTACAGCAACTACGACA

                       *                  
        736 ACAGCAACAACGACTACAGCAACTACGACA
          1 ACAGCAACAACAACTACAGCAACTACGACA

            *      *    
        766 GCAGCAAGAACA
          1 ACAGCAACAACA

        778 GCTGTGTCGT


Statistics
Matches: 35,  Mismatches: 7, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  30   35  1.00

ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08


Consensus pattern (30 bp):   
ACAGCAACAACAACTACAGCAACTACGACA

Found at i:772 original size:15 final size:15

Alignment explanation


    Indices: 706--764  Score: 73
    Period size: 15  Copynumber: 3.9  Consensus size: 15

        696 AATAACTCCC

                       *   
        706 ACAGCAACTACAACT
          1 ACAGCAACTACGACT

                     **   *
        721 ACAGCAACTGTGACA
          1 ACAGCAACTACGACT

                    *      
        736 ACAGCAACAACGACT
          1 ACAGCAACTACGACT

                          
        751 ACAGCAACTACGAC
          1 ACAGCAACTACGAC

        765 AGCAGCAAGA


Statistics
Matches: 35,  Mismatches: 9, Indels: 0
        0.80            0.20        0.00

Matches are distributed among these distances:
  15   35  1.00

ACGTcount: A:0.44, C:0.32, G:0.14, T:0.10


Consensus pattern (15 bp):   
ACAGCAACTACGACT
Done.