Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00582.F3

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: 3634
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29


Found at i:865 original size:51 final size:48

Alignment explanation


    Indices: 740--872  Score: 151
    Period size: 48  Copynumber: 2.7  Consensus size: 48

        730 ATTGAGCAAA

                  *    *                   *        *       
        740 CCATCTAAGAAGTTACTCTCCAAGGAGAAAACGGAAATTGTATCGAAG
          1 CCATCTGAGAAATTACTCTCCAAGGAGAAAATGGAAATTGAATCGAAG

                     **                                   *    
        788 CCATCTGAGGGATTACTCTCCAAGGAGAAAATGGAAATTGAATGGAGGAAG
          1 CCATCTGAGAAATTACTCTCCAAGGAGAAAATGGAAATTGAAT---CGAAG

            *                                  
        839 TCATCTGAGAAATTACTC-CACAAGGAGAAAATGG
          1 CCATCTGAGAAATTACTCTC-CAAGGAGAAAATGG

        873 TATGTTCTTG


Statistics
Matches: 71,  Mismatches: 10, Indels: 5
        0.83            0.12        0.06

Matches are distributed among these distances:
  48   37  0.52
  50    1  0.01
  51   33  0.46

ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20


Consensus pattern (48 bp):   
CCATCTGAGAAATTACTCTCCAAGGAGAAAATGGAAATTGAATCGAAG

Found at i:1064 original size:54 final size:54

Alignment explanation


    Indices: 976--1136  Score: 229
    Period size: 54  Copynumber: 3.0  Consensus size: 54

        966 AGCCTTTTCA

                  *              *       *                        
        976 GGAAACCGTATCGAGGAAGAAACCATCTGGGAAATTACTCCCCAAGGAGAAAAT
          1 GGAAACTGTATCGAGGAAGAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAAT

                                     *           *                
       1030 GGAAACTGTATCGAGGAAGAAGCCAACTGAGAAATTAATCCCCAAGGAGAAAAT
          1 GGAAACTGTATCGAGGAAGAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAAT

                   *         *                              *     
       1084 GGAAACTATATC-A--AGGAAGCCATCTGAGAAATTACTCCCCAAGGAAAAAAT
          1 GGAAACTGTATCGAGGAAGAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAAT

              
       1135 GG
          1 GG

       1137 TTGGGGAGTC


Statistics
Matches: 97,  Mismatches: 10, Indels: 3
        0.88            0.09        0.03

Matches are distributed among these distances:
  51   36  0.37
  53    1  0.01
  54   60  0.62

ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16


Consensus pattern (54 bp):   
GGAAACTGTATCGAGGAAGAAGCCATCTGAGAAATTACTCCCCAAGGAGAAAAT

Done.