Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01636.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, 826

Length: 1378
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28


Found at i:684 original size:18 final size:18

Alignment explanation


    Indices: 657--921  Score: 250
    Period size: 18  Copynumber: 14.8  Consensus size: 18

        647 GGAGCCTGAG

                              
        657 AAGCCTAAAGAACCCGAA
          1 AAGCCTAAAGAACCCGAA

                 *        *   
        675 AAGCCCAAAGAACCTGAA
          1 AAGCCTAAAGAACCCGAA

              *  *        *  *
        693 AAACCCAAAGAACCTGAG
          1 AAGCCTAAAGAACCCGAA

                      *   *   
        711 AAGCCTAAAGTACCAGAA
          1 AAGCCTAAAGAACCCGAA

              *  *            
        729 AAACCAAAAGAACCCGAA
          1 AAGCCTAAAGAACCCGAA

                      *   *   
        747 AAGCCTAAAGCACCAGAA
          1 AAGCCTAAAGAACCCGAA

              *  *            
        765 AAACCAAAAGAACCCGAA
          1 AAGCCTAAAGAACCCGAA

                 *             
        783 AA-CCCAAAGAACCCGAGA
          1 AAGCCTAAAGAACCCGA-A

                     *        
        801 AA-CCTAAACAACCCGAA
          1 AAGCCTAAAGAACCCGAA

                 *            
        818 AAGCCGAAAGAACCCGAA
          1 AAGCCTAAAGAACCCGAA

              *  *             
        836 AAACCCAAAGAACCCGAGA
          1 AAGCCTAAAGAACCCGA-A

                 *   *        
        855 AA-CCGAAACAACCCGAA
          1 AAGCCTAAAGAACCCGAA

                 *            
        872 AAGCCGAAAGAACCCGAA
          1 AAGCCTAAAGAACCCGAA

                    *     *    
        890 AAGCCTAAGGAACCTGAGA
          1 AAGCCTAAAGAACCCGA-A

                 *        
        909 AA-CCAAAAGAACC
          1 AAGCCTAAAGAACC

        922 ACCACCACCA


Statistics
Matches: 206,  Mismatches: 36, Indels: 10
        0.82            0.14        0.04

Matches are distributed among these distances:
  17   19  0.09
  18  181  0.88
  19    6  0.03

ACGTcount: A:0.52, C:0.29, G:0.16, T:0.03


Consensus pattern (18 bp):   
AAGCCTAAAGAACCCGAA

Found at i:691 original size:36 final size:36

Alignment explanation


    Indices: 663--921  Score: 288
    Period size: 36  Copynumber: 7.2  Consensus size: 36

        653 TGAGAAGCCT

                                      *        *
        663 AAAGAACCCGAAAAGCCCAAAGAACCTGAAAAACCC
          1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA

                    *  *     *    *   *         
        699 AAAGAACCTGAGAAGCCTAAAGTACCAGAAAAACCA
          1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA

                             *    *   *         
        735 AAAGAACCCGAAAAGCCTAAAGCACCAGAAAAACCA
          1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA

                                         *     *
        771 AAAGAACCCGAAAA-CCCAAAGAACCCGAGAAACCT
          1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA

               *             *                 *
        806 AAACAACCCGAAAAGCCGAAAGAACCCGAAAAACCC
          1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA

                              *   *          *  *
        842 AAAGAACCCGAGAAA-CCGAAACAACCCGAAAAGCCG
          1 AAAGAACCCGA-AAAGCCCAAAGAACCCGAAAAACCA

                             *  *     *  *      
        878 AAAGAACCCGAAAAGCCTAAGGAACCTGAGAAACCA
          1 AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA

                    
        914 AAAGAACC
          1 AAAGAACC

        922 ACCACCACCA


Statistics
Matches: 191,  Mismatches: 29, Indels: 6
        0.85            0.13        0.03

Matches are distributed among these distances:
  35   32  0.17
  36  156  0.82
  37    3  0.02

ACGTcount: A:0.53, C:0.29, G:0.16, T:0.03


Consensus pattern (36 bp):   
AAAGAACCCGAAAAGCCCAAAGAACCCGAAAAACCA

Found at i:730 original size:54 final size:54

Alignment explanation


    Indices: 639--921  Score: 291
    Period size: 54  Copynumber: 5.3  Consensus size: 54

        629 TCCTCCTTCC

                    *  *  *  *     *              *           *  *
        639 AAACCCAAGGAGCCTGAGAAGCCTAAAGAACCCGAAAAGCCCAAAGAACCTGAA
          1 AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG

                          *  *     *    *   *        *            
        693 AAACCCAAAGAACCTGAGAAGCCTAAAGTACCAGAAAAACCAAAAGAACCCGA-
          1 AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG

                  *    *   *     *  *                              
        746 AAAGCCTAAAGCACCAGAAAAACCAAAAGAACCCG-AAAACCCAAAGAACCCGAG
          1 AAA-CCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG

                 *   *                                            
        800 AAACCTAAACAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
          1 AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG

                 *   *                            *  *  *     *   
        854 AAACCGAAACAACCCGAAAAGCCGAAAGAACCCGAAAAGCCTAAGGAACCTGAG
          1 AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG

                 *        
        908 AAACCAAAAGAACC
          1 AAACCCAAAGAACC

        922 ACCACCACCA


Statistics
Matches: 198,  Mismatches: 28, Indels: 6
        0.85            0.12        0.03

Matches are distributed among these distances:
  53   46  0.23
  54  152  0.77

ACGTcount: A:0.51, C:0.29, G:0.17, T:0.04


Consensus pattern (54 bp):   
AAACCCAAAGAACCCGAAAAGCCGAAAGAACCCGAAAAACCCAAAGAACCCGAG
Done.