Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g00502.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: 3223
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31


Found at i:831 original size:18 final size:18

Alignment explanation


    Indices: 790--832  Score: 50
    Period size: 18  Copynumber: 2.4  Consensus size: 18

        780 CTCATTCTTC

                        *     
        790 TAGAGGAAGAGGTAGAAG
          1 TAGAGGAAGAGGAAGAAG

             *       *      * 
        808 TTGAGGAAGGGGAAGAGG
          1 TAGAGGAAGAGGAAGAAG

                   
        826 TAGAGGA
          1 TAGAGGA

        833 GACAGTTGGA


Statistics
Matches: 20,  Mismatches: 5, Indels: 0
        0.80            0.20        0.00

Matches are distributed among these distances:
  18   20  1.00

ACGTcount: A:0.40, C:0.00, G:0.49, T:0.12


Consensus pattern (18 bp):   
TAGAGGAAGAGGAAGAAG

Found at i:1940 original size:39 final size:39

Alignment explanation


    Indices: 1886--1963  Score: 138
    Period size: 39  Copynumber: 2.0  Consensus size: 39

       1876 GAGAATATTG

                            *                      
       1886 CTCCAAGGAATTTGGAGCATTTTGTGATAGCCATGGCAT
          1 CTCCAAGGAATTTGGACCATTTTGTGATAGCCATGGCAT

                                          *        
       1925 CTCCAAGGAATTTGGACCATTTTGTGATAGTCATGGCAT
          1 CTCCAAGGAATTTGGACCATTTTGTGATAGCCATGGCAT

       1964 TTGGAAAGAG


Statistics
Matches: 37,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  39   37  1.00

ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32


Consensus pattern (39 bp):   
CTCCAAGGAATTTGGACCATTTTGTGATAGCCATGGCAT
Done.