Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_26118

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, 1000

Length: 4044
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27


Found at i:181 original size:18 final size:18

Alignment explanation


    Indices: 141--189  Score: 62
    Period size: 18  Copynumber: 2.7  Consensus size: 18

        131 ATGGTGCTGG

                              
        141 TGATGATGATGATGAAGA
          1 TGATGATGATGATGAAGA

            *               **
        159 CGATGATGATGATGAATT
          1 TGATGATGATGATGAAGA

                    *    
        177 TGATGATGCTGAT
          1 TGATGATGATGAT

        190 TCAGGAGCAG


Statistics
Matches: 26,  Mismatches: 5, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  18   26  1.00

ACGTcount: A:0.33, C:0.04, G:0.31, T:0.33


Consensus pattern (18 bp):   
TGATGATGATGATGAAGA

Found at i:2773 original size:24 final size:24

Alignment explanation


    Indices: 2746--2793  Score: 96
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       2736 TGGAAAGCAG

                                    
       2746 GAAGGTGGTGTGAATGGTGTTCTT
          1 GAAGGTGGTGTGAATGGTGTTCTT

                                    
       2770 GAAGGTGGTGTGAATGGTGTTCTT
          1 GAAGGTGGTGTGAATGGTGTTCTT

       2794 TCTTGTGAGA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   24  1.00

ACGTcount: A:0.17, C:0.04, G:0.42, T:0.38


Consensus pattern (24 bp):   
GAAGGTGGTGTGAATGGTGTTCTT
Done.