Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_09220

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, 712

Length: 1188
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25


Found at i:75 original size:27 final size:27

Alignment explanation


    Indices: 25--83  Score: 75
    Period size: 27  Copynumber: 2.2  Consensus size: 27

         15 CAGTGATGAT

                        *              
         25 CATCACCACCACCACCACAGCCACCAC
          1 CATCACCACCACAACCACAGCCACCAC

                                *      *
         52 CATCACCACCAACAACCAC-TCCACCAT
          1 CATCACCACC-ACAACCACAGCCACCAC

                 
         79 CATCA
          1 CATCA

         84 TCATCACCAC


Statistics
Matches: 28,  Mismatches: 3, Indels: 2
        0.85            0.09        0.06

Matches are distributed among these distances:
  27   21  0.75
  28    7  0.25

ACGTcount: A:0.36, C:0.54, G:0.02, T:0.08


Consensus pattern (27 bp):   
CATCACCACCACAACCACAGCCACCAC
Done.