Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g01542.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: 2043
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37


Found at i:156 original size:3 final size:3

Alignment explanation


    Indices: 142--176  Score: 61
    Period size: 3  Copynumber: 11.7  Consensus size: 3

        132 TGTGCATGGG

                  *                                       
        142 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
          1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA

        177 AGAAGAAGAC


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   3   30  1.00

ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29


Consensus pattern (3 bp):   
GAT

Found at i:184 original size:6 final size:6

Alignment explanation


    Indices: 175--220  Score: 56
    Period size: 6  Copynumber: 7.7  Consensus size: 6

        165 TGATGATGAT

                 *             *                    *      *     
        175 GAAGAA GAAGAC GAAGAA GAAGAC GAAGAC GAAGAT GAAGAT GAAG
          1 GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GAAG

        221 CCAACGCCGA


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

Matches are distributed among these distances:
   6   36  1.00

ACGTcount: A:0.54, C:0.07, G:0.35, T:0.04


Consensus pattern (6 bp):   
GAAGAC

Found at i:190 original size:12 final size:12

Alignment explanation


    Indices: 175--220  Score: 65
    Period size: 12  Copynumber: 3.8  Consensus size: 12

        165 TGATGATGAT

                        
        175 GAAGAAGAAGAC
          1 GAAGAAGAAGAC

                        
        187 GAAGAAGAAGAC
          1 GAAGAAGAAGAC

                 *     *
        199 GAAGACGAAGAT
          1 GAAGAAGAAGAC

                 *    
        211 GAAGATGAAG
          1 GAAGAAGAAG

        221 CCAACGCCGA


Statistics
Matches: 31,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  12   31  1.00

ACGTcount: A:0.54, C:0.07, G:0.35, T:0.04


Consensus pattern (12 bp):   
GAAGAAGAAGAC

Found at i:202 original size:18 final size:18

Alignment explanation


    Indices: 175--220  Score: 65
    Period size: 18  Copynumber: 2.6  Consensus size: 18

        165 TGATGATGAT

                              
        175 GAAGAAGAAGACGAAGAA
          1 GAAGAAGAAGACGAAGAA

                 *           *
        193 GAAGACGAAGACGAAGAT
          1 GAAGAAGAAGACGAAGAA

                 *    
        211 GAAGATGAAG
          1 GAAGAAGAAG

        221 CCAACGCCGA


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   25  1.00

ACGTcount: A:0.54, C:0.07, G:0.35, T:0.04


Consensus pattern (18 bp):   
GAAGAAGAAGACGAAGAA
Done.