Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00404.F1

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: 4197
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36


Found at i:659 original size:137 final size:137

Alignment explanation


    Indices: 377--663  Score: 513
    Period size: 138  Copynumber: 2.1  Consensus size: 137

        367 GAGTAGTCTC

                      *            *                                         
        377 CCCAAATGGGTTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
          1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT

                                                                             
        442 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACC
         66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACC

                   
        507 ACTGTTA
        131 ACTGTTA

                                                                             
        514 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                             *                                               
        579 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTG-AAAAGGGCTCTGGCCCAGTAC
         65 TGTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTAC

                    
        643 CACTGTTA
        130 CACTGTTA

              **         
        651 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

        664 AGGCCCAATG


Statistics
Matches: 144,  Mismatches: 5, Indels: 2
        0.95            0.03        0.01

Matches are distributed among these distances:
 137   59  0.41
 138   85  0.59

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


Consensus pattern (137 bp):   
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAAGGGCTCTGGCCCAGTACC
ACTGTTA

Done.