Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00498.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: 5157
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30


Found at i:1589 original size:27 final size:27

Alignment explanation


    Indices: 1548--1686  Score: 174
    Period size: 27  Copynumber: 5.2  Consensus size: 27

       1538 GAGGAAGCGT

                      *                
       1548 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                                       
       1575 TCTGGTGGCTCTGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                              *       *
       1602 TCTGGT-GCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                             * *        
       1628 TCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                   *     *     *      *
       1656 TCTGGTGACTCTGTCAC-ATTATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                 
       1682 TCTGG
          1 TCTGG

       1687 CAGCCATGCT


Statistics
Matches: 100,  Mismatches: 10, Indels: 5
        0.87            0.09        0.04

Matches are distributed among these distances:
  26   29  0.29
  27   56  0.56
  28   15  0.15

ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Found at i:1632 original size:53 final size:54

Alignment explanation


    Indices: 1548--1686  Score: 192
    Period size: 53  Copynumber: 2.6  Consensus size: 54

       1538 GAGGAAGCGT

                      *       *       *                            
       1548 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
          1 TCTGGT-GCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA

                                                       * *        
       1602 TCTGGTGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA

                         *                  
       1656 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
          1 TCTGGTG-CTCTGCCACATATATCTGTTCTGG

       1687 CAGCCATGCT


Statistics
Matches: 77,  Mismatches: 6, Indels: 4
        0.89            0.07        0.05

Matches are distributed among these distances:
  53   41  0.53
  54   26  0.34
  55   10  0.13

ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35


Consensus pattern (54 bp):   
TCTGGTGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Done.