Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00563.N5

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: 3783
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38


Found at i:663 original size:82 final size:82

Alignment explanation


    Indices: 526--690  Score: 303
    Period size: 82  Copynumber: 2.0  Consensus size: 82

        516 GTTCATTACA

                                      *                                      
        526 GTATAAAAGAAAATTAGTTCTCTGGTGACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
          1 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT

                    *        
        591 TAAATCTTGTAAATCAT
         66 TAAATCTTATAAATCAT

                                                                      *      
        608 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTGATGATT
          1 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT

                             
        673 TAAATCTTATAAATCAT
         66 TAAATCTTATAAATCAT

             
        690 G
          1 G

        691 GTAAGTGTCT


Statistics
Matches: 80,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  82   80  1.00

ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38


Consensus pattern (82 bp):   
GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTAATGATT
TAAATCTTATAAATCAT

Found at i:3127 original size:18 final size:19

Alignment explanation


    Indices: 3104--3139  Score: 65
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       3094 ATTGTTTTCA

                               
       3104 TACCTT-TAGGTATATCAC
          1 TACCTTGTAGGTATATCAC

                              
       3122 TACCTTGTAGGTATATCA
          1 TACCTTGTAGGTATATCA

       3140 TTAATATCAT


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  18    6  0.35
  19   11  0.65

ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39


Consensus pattern (19 bp):   
TACCTTGTAGGTATATCAC

Done.