Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_18089

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, 873

Length: 1455
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21


Found at i:1003 original size:12 final size:12

Alignment explanation


    Indices: 982--1019  Score: 58
    Period size: 12  Copynumber: 3.2  Consensus size: 12

        972 TGATCATCAT

                        
        982 CAGCAACAGCAG
          1 CAGCAACAGCAG

                 *      
        994 CAGCACCAGCAG
          1 CAGCAACAGCAG

                    *   
       1006 CAGCAACAACAG
          1 CAGCAACAGCAG

              
       1018 CA
          1 CA

       1020 ACAGCAACAT


Statistics
Matches: 23,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  12   23  1.00

ACGTcount: A:0.42, C:0.37, G:0.21, T:0.00


Consensus pattern (12 bp):   
CAGCAACAGCAG

Found at i:1237 original size:15 final size:15

Alignment explanation


    Indices: 1219--1253  Score: 61
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       1209 GCAGCTGCAT

                           
       1219 CAACAACAGCAGCAA
          1 CAACAACAGCAGCAA

                          *
       1234 CAACAACAGCAGCAG
          1 CAACAACAGCAGCAA

                 
       1249 CAACA
          1 CAACA

       1254 TTATAAACTG


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

Matches are distributed among these distances:
  15   19  1.00

ACGTcount: A:0.51, C:0.34, G:0.14, T:0.00


Consensus pattern (15 bp):   
CAACAACAGCAGCAA
Done.