Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01631.P1

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: 3657
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30


Found at i:372 original size:26 final size:26

Alignment explanation


    Indices: 309--384  Score: 89
    Period size: 26  Copynumber: 2.8  Consensus size: 26

        299 AAAAGTAGCT

                    * *            *    
        309 AAATTACTATAATACCCCTATGTATGAA
          1 AAATTACTGTTATACCCCTA-G-GTGAA

                                    * 
        337 AAATTACTGTTATACCCCTAGGTGCA
          1 AAATTACTGTTATACCCCTAGGTGAA

                           *      
        363 AAATTACTGTTATACACCTAGG
          1 AAATTACTGTTATACCCCTAGG

        385 GTTAATTTTG


Statistics
Matches: 43,  Mismatches: 5, Indels: 2
        0.86            0.10        0.04

Matches are distributed among these distances:
  26   24  0.56
  27    1  0.02
  28   18  0.42

ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32


Consensus pattern (26 bp):   
AAATTACTGTTATACCCCTAGGTGAA

Found at i:528 original size:27 final size:27

Alignment explanation


    Indices: 487--654  Score: 230
    Period size: 27  Copynumber: 6.2  Consensus size: 27

        477 GAGGAAGCGT

                      *                
        487 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                                       
        514 TCTGGTGGCTCTGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                                       
        541 TCTGGTGGCTCTGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                              *       *
        568 TCTGGTGGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                     *       * *        
        595 TCTGGTGGCCCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                   *     *     *      *
        623 TCTGGTGACTCTGTCAC-ATTATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                  
        649 TCTGGT
          1 TCTGGT

        655 AGCCATGCTG


Statistics
Matches: 128,  Mismatches: 12, Indels: 3
        0.90            0.08        0.02

Matches are distributed among these distances:
  26    6  0.05
  27  108  0.84
  28   14  0.11

ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Done.