Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01841.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, 735

Length: 1226
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30


Found at i:324 original size:26 final size:26

Alignment explanation


    Indices: 266--401  Score: 222
    Period size: 26  Copynumber: 5.3  Consensus size: 26

        256 TGATACAAAT

                                      
        266 TGATAATAGGTTAGGTAAAT-TT-CA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                                      
        290 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                                      
        316 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                   *               *  
        342 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                   *               *  
        368 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                    
        394 TGATAATA
          1 TGATAATA

        402 ATTTCATGTC


Statistics
Matches: 107,  Mismatches: 3, Indels: 2
        0.96            0.03        0.02

Matches are distributed among these distances:
  24   20  0.19
  25    2  0.02
  26   85  0.79

ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37


Consensus pattern (26 bp):   
TGATAATAGGTTAGGTAAATGTTCCA

Found at i:1040 original size:136 final size:136

Alignment explanation


    Indices: 796--1080  Score: 536
    Period size: 136  Copynumber: 2.1  Consensus size: 136

        786 GAGTAGTCTC

                                                                             
        796 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                             
        861 TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
         66 TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA

                  
        926 CTGTTA
        131 CTGTTA

                                                                             
        932 CCCAAATGGGCTTGCATATGTTTACTGATGTT-CATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                             
        996 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TGTTATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1061 ACTGTTA
        130 ACTGTTA

              **         
       1068 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       1081 AGGCCCAATA


Statistics
Matches: 146,  Mismatches: 2, Indels: 2
        0.97            0.01        0.01

Matches are distributed among these distances:
 135   46  0.32
 136  100  0.68

ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32


Consensus pattern (136 bp):   
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Done.