Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00669.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, 1000

Length: 2107
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31


Found at i:377 original size:26 final size:26

Alignment explanation


    Indices: 341--450  Score: 186
    Period size: 26  Copynumber: 4.2  Consensus size: 26

        331 TGATACAAAT

                                      
        341 TGATAATAGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                                   *  
        367 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                   *                  
        393 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                                       
        419 TGATAAT-GAGTTAGGTAAATGTTTCA
          1 TGATAATAG-GTTAGGTAAATGTTTCA

                  
        445 TGATAA
          1 TGATAA

        451 GAATTTCATG


Statistics
Matches: 80,  Mismatches: 3, Indels: 2
        0.94            0.04        0.02

Matches are distributed among these distances:
  25    1  0.01
  26   79  0.99

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


Consensus pattern (26 bp):   
TGATAATAGGTTAGGTAAATGTTTCA

Found at i:1553 original size:130 final size:132

Alignment explanation


    Indices: 1320--1599  Score: 465
    Period size: 130  Copynumber: 2.1  Consensus size: 132

       1310 GAGTAGTCTC

                                                                             
       1320 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                    *                                                        
       1385 TGTTATATGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG-A-TCTGGCCCAGTACCACTGT
         66 TGTTATATAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAGTCTGGCCCAGTACCACTGT

              
       1448 TA
        131 TA

                                                                             
       1450 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                  *                                                          
       1515 TGTTATCTAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TGTTATATAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG--AA--G-TCTGGCCCAGTACC

                   
       1580 ACTGTTA
        126 ACTGTTA

              **         
       1587 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       1600 AGGCCCAATA


Statistics
Matches: 139,  Mismatches: 4, Indels: 7
        0.93            0.03        0.05

Matches are distributed among these distances:
 130  106  0.76
 133    1  0.01
 137   32  0.23

ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32


Consensus pattern (132 bp):   
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATATAAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAGTCTGGCCCAGTACCACTGT
TA
Done.