Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00122.N1

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, 481

Length: 802
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32


Found at i:525 original size:27 final size:27

Alignment explanation


    Indices: 484--596  Score: 129
    Period size: 27  Copynumber: 4.2  Consensus size: 27

        474 GAGGAAGCGT

                      *                
        484 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                              *       *
        511 TCTGGTGGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                             * *        
        538 TCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                   *     *     *      *
        566 TCTGGTGACTCTGTCAC-ATTATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                 
        592 TCTGG
          1 TCTGG

        597 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:589 original size:54 final size:54

Alignment explanation


    Indices: 482--596  Score: 169
    Period size: 54  Copynumber: 2.1  Consensus size: 54

        472 TGGAGGAAGC

                                                *                 
        482 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
          1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT

                        *      * *                     *           
        536 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
          1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT

                   
        590 GTTCTGG
          1 GTTCTGG

        597 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.