Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00947.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: 3175
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36


Found at i:2907 original size:42 final size:42

Alignment explanation


    Indices: 2809--2962  Score: 132
    Period size: 42  Copynumber: 3.7  Consensus size: 42

       2799 GGAAAGCCTT

                   *      *     *          *     *  **
       2809 ATTAAAGGTCATGTCTTTAGTGGCGTTTGAGAAGAAAATGTT
          1 ATTAAAGATCATGTTTTTAGCGGCGTTTGAGGAGAAAGTGCC

            *    *                                    
       2851 GTTAAGGATCATGTTTTTAGCGGCGTTTGAGGAGAAAGTGCC
          1 ATTAAAGATCATGTTTTTAGCGGCGTTTGAGGAGAAAGTGCC

                     *          *        *             
       2893 ATTAAAGATTATGTTTTTAGTGGCAG-TTCA-GAGAAAGTGCC
          1 ATTAAAGATCATGTTTTTAGCGGC-GTTTGAGGAGAAAGTGCC

            *      * *              *    
       2934 GTTAAAGGTTATGTTCTTTAGCGGAGTTT
          1 ATTAAAGATCATGTT-TTTAGCGGCGTTT

       2963 TTAGCGGCAC


Statistics
Matches: 91,  Mismatches: 18, Indels: 6
        0.79            0.16        0.05

Matches are distributed among these distances:
  41   25  0.27
  42   65  0.71
  43    1  0.01

ACGTcount: A:0.27, C:0.09, G:0.28, T:0.36


Consensus pattern (42 bp):   
ATTAAAGATCATGTTTTTAGCGGCGTTTGAGGAGAAAGTGCC
Done.