Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_09339

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, 631

Length: 1052
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21


Found at i:502 original size:3 final size:3

Alignment explanation


    Indices: 494--546  Score: 81
    Period size: 3  Copynumber: 17.7  Consensus size: 3

        484 ATTCAGATTA

                                                     *                  
        494 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CGC C-C GCAC CAC CAC
          1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC -CAC CAC CAC

                      
        539 CAC CAC CA
          1 CAC CAC CA

        547 GCAGTCACTT


Statistics
Matches: 47,  Mismatches: 1, Indels: 4
        0.90            0.02        0.08

Matches are distributed among these distances:
   2    1  0.02
   3   45  0.96
   4    1  0.02

ACGTcount: A:0.30, C:0.66, G:0.04, T:0.00


Consensus pattern (3 bp):   
CAC

Done.