Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023477.1 Corchorus olitorius cultivar O-4 contig23510, 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, 1000

Length: 9208
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31


Found at i:5802 original size:8 final size:8

Alignment explanation


    Indices: 5791--5847  Score: 54
    Period size: 8  Copynumber: 7.9  Consensus size: 8

       5781 AAATTAAGCA

                    
       5791 ATTTATAG
          1 ATTTATAG

                    
       5799 ATTTATAG
          1 ATTTATAG

                    
       5807 A--TATAG
          1 ATTTATAG

                    
       5813 A--TATAG
          1 ATTTATAG

                   *
       5819 A--TATAA
          1 ATTTATAG

                    
       5825 ATTTATAG
          1 ATTTATAG

                    
       5833 ATTTATAG
          1 ATTTATAG

              *    
       5841 ATATATA
          1 ATTTATA

       5848 ATCTTAGCGT


Statistics
Matches: 44,  Mismatches: 3, Indels: 4
        0.86            0.06        0.08

Matches are distributed among these distances:
   6   17  0.39
   8   27  0.61

ACGTcount: A:0.46, C:0.00, G:0.11, T:0.44


Consensus pattern (8 bp):   
ATTTATAG

Found at i:5845 original size:14 final size:14

Alignment explanation


    Indices: 5794--5834  Score: 59
    Period size: 14  Copynumber: 3.1  Consensus size: 14

       5784 TTAAGCAATT

                          
       5794 TATAGATTTATAGA
          1 TATAGATTTATAGA

                          
       5808 TATAGA--TATAGA
          1 TATAGATTTATAGA

                *         
       5820 TATAAATTTATAGA
          1 TATAGATTTATAGA

             
       5834 T
          1 T

       5835 TTATAGATAT


Statistics
Matches: 24,  Mismatches: 1, Indels: 4
        0.83            0.03        0.14

Matches are distributed among these distances:
  12   11  0.46
  14   13  0.54

ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41


Consensus pattern (14 bp):   
TATAGATTTATAGA
Done.