Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00809.N4

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: 2490
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31


Found at i:631 original size:27 final size:27

Alignment explanation


    Indices: 593--715  Score: 147
    Period size: 27  Copynumber: 4.5  Consensus size: 27

        583 AAGCGTTCTG

                  *            *       
        593 GTGGCTATGCCACAAATATATGATCTA
          1 GTGGCTCTGCCACAAATATCTGATCTA

                                      *
        620 GTGGCTCTGCCACAAATATCTGATCTG
          1 GTGGCTCTGCCACAAATATCTGATCTA

                          *       *   *
        647 GTGGCTCTGCCACATATATCTGTTCTG
          1 GTGGCTCTGCCACAAATATCTGATCTA

                         * *            
        674 GTGGCTCTGCCACGATTATCTGTATCTA
          1 GTGGCTCTGCCACAAATATCTG-ATCTA

               *     *    
        702 GTGACTCTGTCACA
          1 GTGGCTCTGCCACA

        716 TTATCTGTTC


Statistics
Matches: 82,  Mismatches: 13, Indels: 1
        0.85            0.14        0.01

Matches are distributed among these distances:
  27   68  0.83
  28   14  0.17

ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33


Consensus pattern (27 bp):   
GTGGCTCTGCCACAAATATCTGATCTA

Found at i:678 original size:54 final size:55

Alignment explanation


    Indices: 589--728  Score: 176
    Period size: 54  Copynumber: 2.6  Consensus size: 55

        579 GAGGAAGCGT

                      *       *    *  *   *                        
        589 TCTGGTGGCTATGCCACAAATATATGATCTAGTGGCTCTGCCACAAATATCTG-A
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA

                                                        * *        
        643 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA

               *   *     *                  
        698 TCTAGTGACTCTGTCACAT-TATCTGTTCTGG
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG

        729 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:0.20, C:0.24, G:0.21, T:0.35


Consensus pattern (55 bp):   
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA

Done.