Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01491.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, 783

Length: 1306
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32


Found at i:871 original size:73 final size:73

Alignment explanation


    Indices: 794--1009  Score: 167
    Period size: 73  Copynumber: 3.1  Consensus size: 73

        784 CTTGCATATG

                                                                             
        794 TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGCCATACTGTTATCTGAATAAGGGGCTAA
          1 TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGCCATACTGTTATCTGAATAAGGGGCTAA

                    
        859 GGCCCAGT
         66 GGCCCAGT

                                *     *      *                      **    *  
        867 TTA-T--TG-T--A---A-TCTGAAAAGGG-CTCTGGCCCAGTACCACTGTTA-C-CCA-AATGG
          1 TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGG-CCA-T---ACTGTTATCTGAATAAGGG

                 *  **    
        918 GCT--TGCATATGT
         61 GCTAAGGCCCA-GT

               *                                                             
        930 TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATCTGAATAAGGGGCTA
          1 TTATTGATGTTGCATGTATTTTGAAATGGGCCTAT-GGCCATACTGTTATCTGAATAAGGGGCTA

                     
        995 AGGCCCAGT
         65 AGGCCCAGT

                  
       1004 TTATTG
          1 TTATTG

       1010 TAATCTAAAA


Statistics
Matches: 101,  Mismatches: 19, Indels: 45
        0.61            0.12        0.27

Matches are distributed among these distances:
  62    8  0.08
  63   17  0.17
  64   10  0.10
  65    1  0.01
  66    3  0.03
  67    9  0.09
  69    2  0.02
  70    9  0.09
  71    1  0.01
  72    3  0.03
  73   20  0.20
  74   13  0.13
  75    5  0.05

ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33


Consensus pattern (73 bp):   
TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGCCATACTGTTATCTGAATAAGGGGCTAA
GGCCCAGT

Found at i:947 original size:136 final size:136

Alignment explanation


    Indices: 638--1058  Score: 763
    Period size: 135  Copynumber: 3.1  Consensus size: 136

        628 GAGTAGTCTC

                         *                                                   
        638 CCCAAATGGGCTTACATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
          1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT

                                                               *          *  
        703 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATCA
         66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA

                  
        768 CTGTTA
        131 CTGTTA

                                                                             
        774 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTAT-GGCCATACT
          1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT

                                                                             
        838 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
         66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA

                  
        903 CTGTTA
        131 CTGTTA

                                    *                                        
        909 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                      *                      
        974 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACC
         65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1039 ACTGTTA
        130 ACTGTTA

              **         
       1046 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       1059 AGGCCCAATA


Statistics
Matches: 276,  Mismatches: 7, Indels: 3
        0.97            0.02        0.01

Matches are distributed among these distances:
 135   98  0.36
 136   88  0.32
 137   90  0.33

ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32


Consensus pattern (136 bp):   
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Done.