Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00220.N1

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, 334

Length: 557
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35


Found at i:87 original size:26 final size:26

Alignment explanation


    Indices: 50--188  Score: 215
    Period size: 26  Copynumber: 5.2  Consensus size: 26

         40 TGATACAAAT

                   *               *  
         50 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATGGGTTAGGTAAATGTTTCA

                                      
         76 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATGGGTTAGGTAAATGTTTCA

                   *               *  
        102 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATGGGTTAGGTAAATGTTTCA

                                         
        128 TGATAATGATGGGTTAGGTAAATGTTTCA
          1 TGAT-A--ATGGGTTAGGTAAATGTTTCA

                                      
        157 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATGGGTTAGGTAAATGTTTCA

                  
        183 TGATAA
          1 TGATAA

        189 GAATTTCATG


Statistics
Matches: 104,  Mismatches: 6, Indels: 6
        0.90            0.05        0.05

Matches are distributed among these distances:
  26   79  0.76
  27    1  0.01
  28    1  0.01
  29   23  0.22

ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37


Consensus pattern (26 bp):   
TGATAATGGGTTAGGTAAATGTTTCA

Found at i:169 original size:55 final size:53

Alignment explanation


    Indices: 50--188  Score: 235
    Period size: 55  Copynumber: 2.6  Consensus size: 53

         40 TGATACAAAT

                                                                 
         50 TGATAATAGGTTAGGTAAATGTTCCATGAT-AATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTCCATGATAAATGGGTTAGGTAAATGTTTCA

                                                                   
        102 TGATAATAGGTTAGGTAAATGTTCCATGATAATGATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTCCATGATAA--ATGGGTTAGGTAAATGTTTCA

                   *               *        
        157 TGATAATGGGTTAGGTAAATGTTTCATGATAA
          1 TGATAATAGGTTAGGTAAATGTTCCATGATAA

        189 GAATTTCATG


Statistics
Matches: 82,  Mismatches: 2, Indels: 3
        0.94            0.02        0.03

Matches are distributed among these distances:
  52   30  0.37
  53    1  0.01
  55   51  0.62

ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37


Consensus pattern (53 bp):   
TGATAATAGGTTAGGTAAATGTTCCATGATAAATGGGTTAGGTAAATGTTTCA
Done.