Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g02146.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: 2036
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25


Found at i:224 original size:12 final size:12

Alignment explanation


    Indices: 207--272  Score: 69
    Period size: 12  Copynumber: 5.5  Consensus size: 12

        197 CTGCAACTAC

                   *    
        207 AGGAAGTGGAAG
          1 AGGAAGTAGAAG

                        
        219 AGGAAGTAGAAG
          1 AGGAAGTAGAAG

            *     *     
        231 TGGAAGAAGAAG
          1 AGGAAGTAGAAG

            **          
        243 TTGAAGTAGAAG
          1 AGGAAGTAGAAG

                   *    
        255 AGGAAGTTGAAG
          1 AGGAAGTAGAAG

             *    
        267 AAGAAG
          1 AGGAAG

        273 ACGACGATGA


Statistics
Matches: 45,  Mismatches: 9, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  12   45  1.00

ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12


Consensus pattern (12 bp):   
AGGAAGTAGAAG

Found at i:232 original size:18 final size:18

Alignment explanation


    Indices: 209--266  Score: 89
    Period size: 18  Copynumber: 3.2  Consensus size: 18

        199 GCAACTACAG

                             *
        209 GAAGTGGAAGAGGAAGTA
          1 GAAGTGGAAGAGGAAGTT

                       *      
        227 GAAGTGGAAGAAGAAGTT
          1 GAAGTGGAAGAGGAAGTT

                 *            
        245 GAAGTAGAAGAGGAAGTT
          1 GAAGTGGAAGAGGAAGTT

                
        263 GAAG
          1 GAAG

        267 AAGAAGACGA


Statistics
Matches: 36,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  18   36  1.00

ACGTcount: A:0.45, C:0.00, G:0.41, T:0.14


Consensus pattern (18 bp):   
GAAGTGGAAGAGGAAGTT

Found at i:271 original size:18 final size:18

Alignment explanation


    Indices: 209--273  Score: 85
    Period size: 18  Copynumber: 3.6  Consensus size: 18

        199 GCAACTACAG

                 *           *
        209 GAAGTGGAAGAGGAAGTA
          1 GAAGTAGAAGAGGAAGTT

                 *     *      
        227 GAAGTGGAAGAAGAAGTT
          1 GAAGTAGAAGAGGAAGTT

                              
        245 GAAGTAGAAGAGGAAGTT
          1 GAAGTAGAAGAGGAAGTT

                *      
        263 GAAGAAGAAGA
          1 GAAGTAGAAGA

        274 CGACGATGAC


Statistics
Matches: 42,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   42  1.00

ACGTcount: A:0.48, C:0.00, G:0.40, T:0.12


Consensus pattern (18 bp):   
GAAGTAGAAGAGGAAGTT
Done.