Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_16802

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, 367

Length: 612
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26


Found at i:355 original size:9 final size:9

Alignment explanation


    Indices: 313--439  Score: 139
    Period size: 9  Copynumber: 14.1  Consensus size: 9

        303 ACCATTTCCT

                 *   
        313 CAAATTCCA
          1 CAAATCCCA

            *        
        322 GAAATCCCA
          1 CAAATCCCA

                  *   
        331 -AGAATTCCA
          1 CA-AATCCCA

            *        
        340 GAAATCCCA
          1 CAAATCCCA

                     
        349 CAAATCCCA
          1 CAAATCCCA

              *      
        358 CAGATCCCA
          1 CAAATCCCA

                     
        367 CAAATCCCA
          1 CAAATCCCA

                 *   
        376 CAAATTCCA
          1 CAAATCCCA

             *       
        385 CTAATCCCA
          1 CAAATCCCA

              *      
        394 CAGATCCCA
          1 CAAATCCCA

               *     
        403 CAAGTCCCA
          1 CAAATCCCA

              *      
        412 CAGATCCCA
          1 CAAATCCCA

               *     
        421 CAAGTCCCA
          1 CAAATCCCA

                     
        430 CAAATCCCA
          1 CAAATCCCA

             
        439 C
          1 C

        440 TAATGCCAGG


Statistics
Matches: 97,  Mismatches: 19, Indels: 4
        0.81            0.16        0.03

Matches are distributed among these distances:
   8    1  0.01
   9   95  0.98
  10    1  0.01

ACGTcount: A:0.39, C:0.40, G:0.06, T:0.14


Consensus pattern (9 bp):   
CAAATCCCA

Done.