Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g02236.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, 937

Length: 1563
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31


Found at i:123 original size:26 final size:26

Alignment explanation


    Indices: 88--223  Score: 227
    Period size: 26  Copynumber: 5.2  Consensus size: 26

         78 TGATACAAAT

                                      
         88 TGATAATAGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

             *                        
        114 TAATAATAGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

             *                *    *  
        140 TAATAATAGGTTAGGTAAGTGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                                   *  
        166 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                                      
        192 TGATAATAGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                  
        218 TGATAA
          1 TGATAA

        224 GAATTTCATG


Statistics
Matches: 104,  Mismatches: 6, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  26  104  1.00

ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37


Consensus pattern (26 bp):   
TGATAATAGGTTAGGTAAATGTTTCA

Found at i:1337 original size:136 final size:137

Alignment explanation


    Indices: 1092--1377  Score: 529
    Period size: 136  Copynumber: 2.1  Consensus size: 137

       1082 GAGTAGTCTC

                                                                             
       1092 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                *          * 
       1157 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1222 ACTGTTA
        131 ACTGTTA

                                                                             
       1229 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                             
       1293 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1358 ACTGTTA
        131 ACTGTTA

              **         
       1365 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       1378 AGCCCAATGG


Statistics
Matches: 145,  Mismatches: 4, Indels: 1
        0.97            0.03        0.01

Matches are distributed among these distances:
 136  125  0.86
 137   20  0.14

ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33


Consensus pattern (137 bp):   
CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Done.