Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_28583

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, 469

Length: 783
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27


Found at i:95 original size:12 final size:12

Alignment explanation


    Indices: 74--128  Score: 56
    Period size: 12  Copynumber: 4.6  Consensus size: 12

         64 GCCATTTCTG

                 *     *
         74 CTTCTCCATCAC
          1 CTTCTTCATCAT

                        
         86 CTTCTTCATCAT
          1 CTTCTTCATCAT

             *  *       
         98 CATCATCATCAT
          1 CTTCTTCATCAT

                   *  * 
        110 CTTCTTCTTCTT
          1 CTTCTTCATCAT

                   
        122 CTTCTTC
          1 CTTCTTC

        129 TTCTTCTTTA


Statistics
Matches: 35,  Mismatches: 8, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  12   35  1.00

ACGTcount: A:0.15, C:0.38, G:0.00, T:0.47


Consensus pattern (12 bp):   
CTTCTTCATCAT

Found at i:115 original size:3 final size:3

Alignment explanation


    Indices: 109--136  Score: 56
    Period size: 3  Copynumber: 9.3  Consensus size: 3

         99 ATCATCATCA

                                                 
        109 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
          1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T

        137 TAAGTAGGGC


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   25  1.00

ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68


Consensus pattern (3 bp):   
TCT

Done.