Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01971.F1

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: 3173
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30


Found at i:2871 original size:48 final size:48

Alignment explanation


    Indices: 2805--2920  Score: 169
    Period size: 48  Copynumber: 2.4  Consensus size: 48

       2795 CGAGATAATG

                   *  *  *                             *    
       2805 GGAATCCAAGTGGCGGCTGGAGTCGAGAACAAAGGGATAGAGATTACA
          1 GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGATAGAGAGTACA

                                                          **
       2853 GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGATAGAGAGTATG
          1 GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGATAGAGAGTACA

                          *     
       2901 GGAATCCGAGCGGTCGCTGG
          1 GGAATCCGAGCGGTGGCTGG

       2921 GGCCAAGAGC


Statistics
Matches: 61,  Mismatches: 7, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  48   61  1.00

ACGTcount: A:0.30, C:0.16, G:0.40, T:0.15


Consensus pattern (48 bp):   
GGAATCCGAGCGGTGGCTGGAGTCGAGAACAAAGGGATAGAGAGTACA

Found at i:2936 original size:48 final size:48

Alignment explanation


    Indices: 2820--2938  Score: 139
    Period size: 48  Copynumber: 2.5  Consensus size: 48

       2810 CCAAGTGGCG

                   * *                  *                  *
       2820 GCTGGAGTCGAGAACAAAGGGATAGAGATTACAGGAATCCGAGCGGTG
          1 GCTGGAGCCAAGAACAAAGGGATAGAGAGTACAGGAATCCGAGCGGTC

                   * *                     **               
       2868 GCTGGAGTCGAGAACAAAGGGATAGAGAGTATGGGAATCCGAGCGGTC
          1 GCTGGAGCCAAGAACAAAGGGATAGAGAGTACAGGAATCCGAGCGGTC

                 *       * *       
       2916 GCTGGGGCCAAGAGCGAAGGGAT
          1 GCTGGAGCCAAGAACAAAGGGAT

       2939 CGGATGTCTT


Statistics
Matches: 62,  Mismatches: 9, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  48   62  1.00

ACGTcount: A:0.31, C:0.15, G:0.40, T:0.13


Consensus pattern (48 bp):   
GCTGGAGCCAAGAACAAAGGGATAGAGAGTACAGGAATCCGAGCGGTC
Done.