Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_18149

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: 4578
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26


Found at i:2218 original size:30 final size:30

Alignment explanation


    Indices: 2183--2340  Score: 237
    Period size: 30  Copynumber: 5.3  Consensus size: 30

       2173 TCACGCAGTT

                         *  *        *    
       2183 GGTCTCCCAGAAACCGGAGAAGCAGAAGCA
          1 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA

                            *     *       
       2213 GGTCTCCCAGAAATCGTAGAAGTAGGAGCA
          1 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA

                   *                       
       2243 GGTCTCCTAGAAATC-ATAGAAGCAGGAGCA
          1 GGTCTCCCAGAAATCGA-AGAAGCAGGAGCA

                         *                
       2273 GGTCTCCCAGAAACCGAAGAAGCAGGAGCA
          1 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA

                                          
       2303 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA
          1 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA

                    
       2333 GGTCTCCC
          1 GGTCTCCC

       2341 TATTTGCGTC


Statistics
Matches: 116,  Mismatches: 10, Indels: 4
        0.89            0.08        0.03

Matches are distributed among these distances:
  30  115  0.99
  31    1  0.01

ACGTcount: A:0.34, C:0.25, G:0.29, T:0.12


Consensus pattern (30 bp):   
GGTCTCCCAGAAATCGAAGAAGCAGGAGCA

Done.