Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_11547

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: 19560
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19


Found at i:7389 original size:6 final size:6

Alignment explanation


    Indices: 7378--7464  Score: 120
    Period size: 6  Copynumber: 14.5  Consensus size: 6

       7368 AGACATAAAG

                                   *      *               *        
       7378 GAAGCT GAAGCT GAAGCT GATGCT GATGCT GAAGCT GAAGAT GAAGCT
          1 GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT

              *      *      *                            
       7426 GATGCT GATGCT GATGCT GAAGCT GAAGCT GAAGCT GAA
          1 GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAAGCT GAA

       7465 AGAGAAAAGA


Statistics
Matches: 75,  Mismatches: 6, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   6   75  1.00

ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22


Consensus pattern (6 bp):   
GAAGCT

Found at i:7414 original size:30 final size:30

Alignment explanation


    Indices: 7378--7463  Score: 145
    Period size: 30  Copynumber: 2.9  Consensus size: 30

       7368 AGACATAAAG

                                          
       7378 GAAGCTGAAGCTGAAGCTGATGCTGATGCT
          1 GAAGCTGAAGCTGAAGCTGATGCTGATGCT

                      *                   
       7408 GAAGCTGAAGATGAAGCTGATGCTGATGCT
          1 GAAGCTGAAGCTGAAGCTGATGCTGATGCT

              *                 *     
       7438 GATGCTGAAGCTGAAGCTGAAGCTGA
          1 GAAGCTGAAGCTGAAGCTGATGCTGA

       7464 AAGAGAAAAG


Statistics
Matches: 52,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  30   52  1.00

ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22


Consensus pattern (30 bp):   
GAAGCTGAAGCTGAAGCTGATGCTGATGCT
Done.