Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001722.1 Corchorus olitorius cultivar O-4 contig01722, whole genome shotgun sequence

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, 790

Length: 1317
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28


Found at i:623 original size:7 final size:7

Alignment explanation


    Indices: 611--1071  Score: 557
    Period size: 7  Copynumber: 67.7  Consensus size: 7

        601 CTAATTAAAT

                   
        611 CTAAACC
          1 CTAAACC

                   
        618 CTAAACC
          1 CTAAACC

                   
        625 CTAAACC
          1 CTAAACC

                   
        632 CT-AACC
          1 CTAAACC

                   
        638 CTAAACC
          1 CTAAACC

                   
        645 CT-AACC
          1 CTAAACC

                  *
        651 CTAAACA
          1 CTAAACC

                   
        658 CT-AACC
          1 CTAAACC

                   
        664 CTAAACC
          1 CTAAACC

                   
        671 CT-AACC
          1 CTAAACC

              *   *
        677 CTTAACA
          1 CTAAACC

                   
        684 CT-AACC
          1 CTAAACC

                   
        690 CTAAACC
          1 CTAAACC

                   
        697 CT-AACC
          1 CTAAACC

                   
        703 CTAAACC
          1 CTAAACC

                   
        710 CT-AACC
          1 CTAAACC

            *      
        716 ATAAACC
          1 CTAAACC

            *      
        723 ATAAACC
          1 CTAAACC

                   
        730 CTAAACC
          1 CTAAACC

                   
        737 CTAAACC
          1 CTAAACC

                   
        744 CT-AACC
          1 CTAAACC

            *     *
        750 TTAAACA
          1 CTAAACC

                    
        757 CTAAAACC
          1 CT-AAACC

                   
        765 CTAAACC
          1 CTAAACC

            *      
        772 ATAAACC
          1 CTAAACC

                   
        779 CT-AACC
          1 CTAAACC

                   
        785 CTAAACC
          1 CTAAACC

            *      
        792 TTAAACC
          1 CTAAACC

            *      
        799 ATAAACC
          1 CTAAACC

                   
        806 CT-AACC
          1 CTAAACC

                    
        812 CTAAAACC
          1 CT-AAACC

                   
        820 CT-AACC
          1 CTAAACC

             *     
        826 CAAAACC
          1 CTAAACC

                   
        833 CTAAACC
          1 CTAAACC

                   
        840 CT-AACC
          1 CTAAACC

                    
        846 CATAAACC
          1 C-TAAACC

                   
        854 CT-AACC
          1 CTAAACC

                    
        860 CTAAAACC
          1 CT-AAACC

                 **
        868 CTAAATT
          1 CTAAACC

                   
        875 CTAAACC
          1 CTAAACC

                   
        882 CTAAACC
          1 CTAAACC

                   
        889 CT-AACC
          1 CTAAACC

                    
        895 CATAAACC
          1 C-TAAACC

                   
        903 CT-AACC
          1 CTAAACC

                *  
        909 CTAACCC
          1 CTAAACC

                   
        916 CTAAACC
          1 CTAAACC

                   
        923 CTAAACC
          1 CTAAACC

                   
        930 CT-AACC
          1 CTAAACC

                    
        936 CTAAAACC
          1 CT-AAACC

                   
        944 CTAAACC
          1 CTAAACC

                   
        951 CTAAACC
          1 CTAAACC

                   
        958 CTAAACC
          1 CTAAACC

            *      
        965 TTAAACC
          1 CTAAACC

                   
        972 CTAAACC
          1 CTAAACC

                   
        979 CTAAA-C
          1 CTAAACC

                 * 
        985 CTAAATC
          1 CTAAACC

                   
        992 CT-AACC
          1 CTAAACC

            *      
        998 ATAAACC
          1 CTAAACC

                   
       1005 CT-AACC
          1 CTAAACC

                   
       1011 CTAAACC
          1 CTAAACC

                   
       1018 CTAAACC
          1 CTAAACC

                  *
       1025 CT-AACT
          1 CTAAACC

                    
       1031 CTAAAACC
          1 CT-AAACC

                   
       1039 CTAAACC
          1 CTAAACC

                   
       1046 CTAAACC
          1 CTAAACC

                   
       1053 CTAAACC
          1 CTAAACC

                   
       1060 CTAAACC
          1 CTAAACC

                 
       1067 CTAAA
          1 CTAAA

       1072 AATTAACGCC


Statistics
Matches: 397,  Mismatches: 30, Indels: 54
        0.83            0.06        0.11

Matches are distributed among these distances:
   6  110  0.28
   7  248  0.62
   8   39  0.10

ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16


Consensus pattern (7 bp):   
CTAAACC

Done.