Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_05042

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: 1053
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20


Found at i:140 original size:3 final size:3

Alignment explanation


    Indices: 132--175  Score: 88
    Period size: 3  Copynumber: 14.7  Consensus size: 3

        122 CCAATAAGCG

                                                                      
        132 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
          1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC

        176 GTCTCCTTAA


Statistics
Matches: 41,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   41  1.00

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


Consensus pattern (3 bp):   
CCA

Found at i:547 original size:6 final size:6

Alignment explanation


    Indices: 532--575  Score: 79
    Period size: 6  Copynumber: 7.3  Consensus size: 6

        522 CACCACTGAC

                 *                                             
        532 GATGAG GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GA
          1 GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GA

        576 ACCCCAAGAA


Statistics
Matches: 37,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
   6   37  1.00

ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16


Consensus pattern (6 bp):   
GATGAA

Done.