Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Tc01v2_t005760.1

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: 2243
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27


Found at i:551 original size:12 final size:12

Alignment explanation


    Indices: 528--657  Score: 84
    Period size: 12  Copynumber: 10.8  Consensus size: 12

        518 AAGACATGAG

                 *      
        528 AGGGAGAAGGAA
          1 AGGGAAAAGGAA

            * *         
        540 CGTGAAAAGGAA
          1 AGGGAAAAGGAA

                 *     *
        552 AGGGAGAAGGAT
          1 AGGGAAAAGGAA

            * *         
        564 CGTGAAAAGGAA
          1 AGGGAAAAGGAA

                 *      
        576 AGGGAGAAGGAA
          1 AGGGAAAAGGAA

               *         
        588 CA-TGAAAAGGAA
          1 -AGGGAAAAGGAA

                 *      
        600 AGGGAGAAGGAA
          1 AGGGAAAAGGAA

               * *       
        612 CA-TGCAAAGGAA
          1 -AGGGAAAAGGAA

                 *      
        624 AGGGAGAAGGAA
          1 AGGGAAAAGGAA

            * *         
        636 TGCGAAAAGGAA
          1 AGGGAAAAGGAA

                 *    
        648 AGGGAGAAGG
          1 AGGGAAAAGG

        658 TTGAAAGGGA


Statistics
Matches: 84,  Mismatches: 30, Indels: 8
        0.69            0.25        0.07

Matches are distributed among these distances:
  11    2  0.02
  12   80  0.95
  13    2  0.02

ACGTcount: A:0.49, C:0.05, G:0.42, T:0.05


Consensus pattern (12 bp):   
AGGGAAAAGGAA

Found at i:556 original size:24 final size:24

Alignment explanation


    Indices: 528--657  Score: 206
    Period size: 24  Copynumber: 5.4  Consensus size: 24

        518 AAGACATGAG

                                    
        528 AGGGAGAAGGAACGTGAAAAGGAA
          1 AGGGAGAAGGAACGTGAAAAGGAA

                       *            
        552 AGGGAGAAGGATCGTGAAAAGGAA
          1 AGGGAGAAGGAACGTGAAAAGGAA

                         *          
        576 AGGGAGAAGGAACATGAAAAGGAA
          1 AGGGAGAAGGAACGTGAAAAGGAA

                         *  *       
        600 AGGGAGAAGGAACATGCAAAGGAA
          1 AGGGAGAAGGAACGTGAAAAGGAA

                        * *         
        624 AGGGAGAAGGAATGCGAAAAGGAA
          1 AGGGAGAAGGAACGTGAAAAGGAA

                      
        648 AGGGAGAAGG
          1 AGGGAGAAGG

        658 TTGAAAGGGA


Statistics
Matches: 98,  Mismatches: 8, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  24   98  1.00

ACGTcount: A:0.49, C:0.05, G:0.42, T:0.05


Consensus pattern (24 bp):   
AGGGAGAAGGAACGTGAAAAGGAA

Done.