Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: XR_002445069.1

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: 3527
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33


Found at i:269 original size:84 final size:80

Alignment explanation


    Indices: 124--344  Score: 261
    Period size: 84  Copynumber: 2.8  Consensus size: 80

        114 GGCGCGTGAG

                       *               *       *   *     * *  *              
        124 AAGCTCGAACAACCACAACTTCTGAAAGACACAGCTTCTACCGTCCTCAGCTATTTCAAAACGGC
          1 AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTCAAAA---C

                   *           
        189 GGGCGTCCTTTGCTATGAC
         63 -GGCGTCATTTGCTATGAC

                                                                    *       *
        208 AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTTAAAACGGT
          1 AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTCAAAACGGC

                      *   *
        273 GTCATTTGCTGTGAG
         66 GTCATTTGCTATGAC

             *                                                           
        288 ACGCTCGAACAGCCACAACTTCTG---AA-ACAGCGTCTGCCGTCGTTAGGTATTTCAAAA
          1 AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTCAAAA

        345 TGGAAGCTCG


Statistics
Matches: 123,  Mismatches: 14, Indels: 8
        0.85            0.10        0.06

Matches are distributed among these distances:
  76   30  0.24
  77    2  0.02
  80   37  0.30
  81    1  0.01
  84   53  0.43

ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24


Consensus pattern (80 bp):   
AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTCAAAACGGC
GTCATTTGCTATGAC

Found at i:2835 original size:42 final size:42

Alignment explanation


    Indices: 2788--2904  Score: 198
    Period size: 42  Copynumber: 2.8  Consensus size: 42

       2778 ACGCAGAAGG

                                        *             
       2788 CTTTGATGCAGAAAAAGGAAAAAAAGTTGTGGGACATACTGA
          1 CTTTGATGCAGAAAAAGGAAAAAAAGTTTTGGGACATACTGA

                  *          *                        
       2830 CTTTGACGCAGAAAAAGAAAAAAAAGTTTTGGGACATACTGA
          1 CTTTGATGCAGAAAAAGGAAAAAAAGTTTTGGGACATACTGA

                                  *          
       2872 CTTTGATGCAGAAAAAGGAAAACAAGTTTTGGG
          1 CTTTGATGCAGAAAAAGGAAAAAAAGTTTTGGG

       2905 TCCAGTTGGT


Statistics
Matches: 69,  Mismatches: 6, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  42   69  1.00

ACGTcount: A:0.43, C:0.10, G:0.25, T:0.22


Consensus pattern (42 bp):   
CTTTGATGCAGAAAAAGGAAAAAAAGTTTTGGGACATACTGA

Done.