Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00449.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: 1987
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30


Found at i:1902 original size:16 final size:15

Alignment explanation


    Indices: 1882--1949  Score: 91
    Period size: 16  Copynumber: 4.3  Consensus size: 15

       1872 GGGAGGAATG

                           
       1882 GAATAGAGCTGTAAT
          1 GAATAGAGCTGTAAT

                     *      
       1897 GTAATAGAGTTGTAAT
          1 G-AATAGAGCTGTAAT

                            
       1913 GGAATAGAGCTGTAAT
          1 -GAATAGAGCTGTAAT

                    *       
       1929 AGAATAGACCTGTAAT
          1 -GAATAGAGCTGTAAT

                 
       1945 GAATA
          1 GAATA

       1950 ATTCAGTTGT


Statistics
Matches: 47,  Mismatches: 4, Indels: 4
        0.85            0.07        0.07

Matches are distributed among these distances:
  15    6  0.13
  16   40  0.85
  17    1  0.02

ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28


Consensus pattern (15 bp):   
GAATAGAGCTGTAAT

Found at i:1919 original size:32 final size:32

Alignment explanation


    Indices: 1878--1949  Score: 103
    Period size: 32  Copynumber: 2.3  Consensus size: 32

       1868 GGTTGGGAGG

                                        **   
       1878 AATGGAATAGAGCTGTAAT-GTAATAGAGTTGT
          1 AATGGAATAGAGCTGTAATAG-AATAGACCTGT

                                            
       1910 AATGGAATAGAGCTGTAATAGAATAGACCTGT
          1 AATGGAATAGAGCTGTAATAGAATAGACCTGT

                     
       1942 AAT-GAATA
          1 AATGGAATA

       1950 ATTCAGTTGT


Statistics
Matches: 37,  Mismatches: 2, Indels: 3
        0.88            0.05        0.07

Matches are distributed among these distances:
  31    5  0.14
  32   31  0.84
  33    1  0.03

ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28


Consensus pattern (32 bp):   
AATGGAATAGAGCTGTAATAGAATAGACCTGT
Done.