Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00534.P1

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: 11456
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32


Found at i:5706 original size:24 final size:25

Alignment explanation


    Indices: 5650--5755  Score: 171
    Period size: 24  Copynumber: 4.2  Consensus size: 25

       5640 TGATACAAAT

                                      
       5650 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTT-CA

                                     
       5676 TGATAAT-GGTTAGGTAAATGTTCA
          1 TGATAATAGGTTAGGTAAATGTTCA

                                     
       5700 TGATAAT-GGTTAGGTAAATGTTCA
          1 TGATAATAGGTTAGGTAAATGTTCA

                   *                  
       5724 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATG-TTCA

                  
       5750 TGATAA
          1 TGATAA

       5756 GAATTTCATG


Statistics
Matches: 78,  Mismatches: 0, Indels: 4
        0.95            0.00        0.05

Matches are distributed among these distances:
  24   33  0.42
  25   28  0.36
  26   17  0.22

ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37


Consensus pattern (25 bp):   
TGATAATAGGTTAGGTAAATGTTCA

Found at i:5713 original size:49 final size:51

Alignment explanation


    Indices: 5650--5755  Score: 182
    Period size: 49  Copynumber: 2.1  Consensus size: 51

       5640 TGATACAAAT

                                                                
       5650 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATG-TTCA
          1 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTTCA

                                                               
       5700 TGATAAT-GGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA

                  
       5750 TGATAA
          1 TGATAA

       5756 GAATTTCATG


Statistics
Matches: 54,  Mismatches: 0, Indels: 4
        0.93            0.00        0.07

Matches are distributed among these distances:
  48    9  0.17
  49   28  0.52
  50   17  0.31

ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37


Consensus pattern (51 bp):   
TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
Done.