Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01815.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, 722

Length: 1204
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36


Found at i:836 original size:7 final size:7

Alignment explanation


    Indices: 808--892  Score: 50
    Period size: 7  Copynumber: 12.4  Consensus size: 7

        798 TTTCTTTGGT

                *  
        808 TTTAGGG
          1 TTTAAGG

                  *
        815 TTTAAGA
          1 TTTAAGG

               *   
        822 TTTGAGG
          1 TTTAAGG

                   
        829 TTTAAGG
          1 TTTAAGG

                *  
        836 TTTAGGG
          1 TTTAAGG

               **  
        843 TTTGTGG
          1 TTTAAGG

                    
        850 TTT-AGAG
          1 TTTAAG-G

              * *  
        857 -TCATGG
          1 TTTAAGG

                *  
        863 TTTATGG
          1 TTTAAGG

                   
        870 TTTAAGG
          1 TTTAAGG

                *  
        877 TTTAGGG
          1 TTTAAGG

                   
        884 TTT-AGG
          1 TTTAAGG

               
        890 TTT
          1 TTT

        893 TTGTAAAAAG


Statistics
Matches: 60,  Mismatches: 15, Indels: 7
        0.73            0.18        0.09

Matches are distributed among these distances:
   6    8  0.13
   7   52  0.87

ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47


Consensus pattern (7 bp):   
TTTAAGG

Found at i:837 original size:21 final size:21

Alignment explanation


    Indices: 808--853  Score: 56
    Period size: 21  Copynumber: 2.2  Consensus size: 21

        798 TTTCTTTGGT

                *                
        808 TTTAGGGTTTAAGATTTGAGG
          1 TTTAAGGTTTAAGATTTGAGG

                       * *    *  
        829 TTTAAGGTTTAGGGTTTGTGG
          1 TTTAAGGTTTAAGATTTGAGG

                
        850 TTTA
          1 TTTA

        854 GAGTCATGGT


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.20, C:0.00, G:0.33, T:0.48


Consensus pattern (21 bp):   
TTTAAGGTTTAAGATTTGAGG

Found at i:844 original size:14 final size:14

Alignment explanation


    Indices: 808--892  Score: 77
    Period size: 14  Copynumber: 6.2  Consensus size: 14

        798 TTTCTTTGGT

                         *
        808 TTTAGGGTTTAAGA
          1 TTTAGGGTTTAAGG

                           
        822 TTT-GAGGTTTAAGG
          1 TTTAG-GGTTTAAGG

                      **  
        836 TTTAGGGTTTGTGG
          1 TTTAGGGTTTAAGG

                 *   * *  
        850 TTTAGAG-TCATGG
          1 TTTAGGGTTTAAGG

                *         
        863 TTTATGGTTTAAGG
          1 TTTAGGGTTTAAGG

                          
        877 TTTAGGGTTT-AGG
          1 TTTAGGGTTTAAGG

               
        890 TTT
          1 TTT

        893 TTGTAAAAAG


Statistics
Matches: 57,  Mismatches: 11, Indels: 7
        0.76            0.15        0.09

Matches are distributed among these distances:
  13   16  0.28
  14   40  0.70
  15    1  0.02

ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47


Consensus pattern (14 bp):   
TTTAGGGTTTAAGG
Done.