Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00256.N3

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, 472

Length: 787
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36


Found at i:60 original size:27 final size:27

Alignment explanation


    Indices: 19--131  Score: 129
    Period size: 27  Copynumber: 4.2  Consensus size: 27

          9 GAGGAAGCGT

                      *                
         19 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                              *       *
         46 TCTGGTGGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                             * *        
         73 TCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                   *     *     *      *
        101 TCTGGTGACTCTGTCAC-ATTATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                 
        127 TCTGG
          1 TCTGG

        132 CAGCCATGCT


Statistics
Matches: 75,  Mismatches: 10, Indels: 3
        0.85            0.11        0.03

Matches are distributed among these distances:
  26    5  0.07
  27   55  0.73
  28   15  0.20

ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Found at i:124 original size:54 final size:54

Alignment explanation


    Indices: 17--131  Score: 169
    Period size: 54  Copynumber: 2.1  Consensus size: 54

          7 TGGAGGAAGC

                                                *                 
         17 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
          1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT

                        *      * *                     *           
         71 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
          1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT

                   
        125 GTTCTGG
          1 GTTCTGG

        132 CAGCCATGCT


Statistics
Matches: 55,  Mismatches: 5, Indels: 2
        0.89            0.08        0.03

Matches are distributed among these distances:
  54   37  0.67
  55   18  0.33

ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37


Consensus pattern (54 bp):   
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Done.