Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00252.F1

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: 3449
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30


Found at i:693 original size:27 final size:27

Alignment explanation


    Indices: 652--791  Score: 165
    Period size: 27  Copynumber: 5.2  Consensus size: 27

        642 GAGGAAGCGT

                      *                
        652 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                                       
        679 TCTGGTGGCTCTGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                *             *       *
        706 TCTGATGGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                     *       * *        
        733 TCTGGTGGCCCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                   *     *     *      *
        761 TCTGGTGACTCTGTCAC-ATTATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                 
        787 TCTGG
          1 TCTGG

        792 CAGCCATGCT


Statistics
Matches: 98,  Mismatches: 14, Indels: 3
        0.85            0.12        0.03

Matches are distributed among these distances:
  26    5  0.05
  27   79  0.81
  28   14  0.14

ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Found at i:739 original size:54 final size:55

Alignment explanation


    Indices: 652--791  Score: 185
    Period size: 54  Copynumber: 2.6  Consensus size: 55

        642 GAGGAAGCGT

                      *       *       *         *                  
        652 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA

                *                                       * *        
        706 TCTGATGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA

                   *     *                  
        761 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG

        792 CAGCCATGCT


Statistics
Matches: 75,  Mismatches: 10, Indels: 2
        0.86            0.11        0.02

Matches are distributed among these distances:
  54   58  0.77
  55   17  0.23

ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34


Consensus pattern (55 bp):   
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
Done.