Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_25314

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: 1727
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25


Found at i:141 original size:6 final size:6

Alignment explanation


    Indices: 132--170  Score: 60
    Period size: 6  Copynumber: 6.5  Consensus size: 6

        122 ACCCGCATCC

                             *      *                    
        132 GCAACA GCAACA GCACCA GCACCA GCAACA GCAACA GCA
          1 GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCA

        171 CCATGTGCCA


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   6   31  1.00

ACGTcount: A:0.44, C:0.38, G:0.18, T:0.00


Consensus pattern (6 bp):   
GCAACA

Found at i:159 original size:18 final size:18

Alignment explanation


    Indices: 136--173  Score: 67
    Period size: 18  Copynumber: 2.1  Consensus size: 18

        126 GCATCCGCAA

                       *      
        136 CAGCAACAGCACCAGCAC
          1 CAGCAACAGCAACAGCAC

                              
        154 CAGCAACAGCAACAGCAC
          1 CAGCAACAGCAACAGCAC

              
        172 CA
          1 CA

        174 TGTGCCAACT


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.42, C:0.42, G:0.16, T:0.00


Consensus pattern (18 bp):   
CAGCAACAGCAACAGCAC
Done.