Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00078.F2

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: 3626
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31


Found at i:205 original size:3 final size:3

Alignment explanation


    Indices: 197--255  Score: 55
    Period size: 3  Copynumber: 19.7  Consensus size: 3

        187 CGAGCGAGAC

                              *   *  **       *           *       *        
        197 GAA GAA GAA GAA GAT GAC GTT GAA GAT GAA GAA GAG GAA GAG GAA GAA
          1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA

                          
        245 GAA GAA GAA GA
          1 GAA GAA GAA GA

        256 GCCGAGGCTT


Statistics
Matches: 44,  Mismatches: 12, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
   3   44  1.00

ACGTcount: A:0.54, C:0.02, G:0.37, T:0.07


Consensus pattern (3 bp):   
GAA

Found at i:221 original size:21 final size:21

Alignment explanation


    Indices: 197--252  Score: 67
    Period size: 21  Copynumber: 2.7  Consensus size: 21

        187 CGAGCGAGAC

                          *  * **
        197 GAAGAAGAAGAAGATGACGTT
          1 GAAGAAGAAGAAGAGGAAGAG

                 *               
        218 GAAGATGAAGAAGAGGAAGAG
          1 GAAGAAGAAGAAGAGGAAGAG

                          
        239 GAAGAAGAAGAAGA
          1 GAAGAAGAAGAAGA

        253 AGAGCCGAGG


Statistics
Matches: 29,  Mismatches: 6, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  21   29  1.00

ACGTcount: A:0.54, C:0.02, G:0.38, T:0.07


Consensus pattern (21 bp):   
GAAGAAGAAGAAGAGGAAGAG
Done.