Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013944.1 Corchorus capsularis cultivar CVL-1 contig13965, 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: 20025
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33


Found at i:9885 original size:31 final size:31

Alignment explanation


    Indices: 9816--9917  Score: 105
    Period size: 31  Copynumber: 3.3  Consensus size: 31

       9806 TCCTTTTGTG

                              *  *      ** 
       9816 CACGTGGCATGCCACGTGCCATTTTTTGAAA
          1 CACGTGGCATGCCACGTGTCACTTTTTGGTA

              *                            
       9847 CATGTGGCATGCCACGTGTCACTTTTTGGTA
          1 CACGTGGCATGCCACGTGTCACTTTTTGGTA

                    *  ** *     *          
       9878 CACGTGGCGTGATATGTGTCCCTTTTTGGTA
          1 CACGTGGCATGCCACGTGTCACTTTTTGGTA

              *      
       9909 CATGTGGCA
          1 CACGTGGCA

       9918 CGACTTTTTG


Statistics
Matches: 58,  Mismatches: 13, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  31   58  1.00

ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33


Consensus pattern (31 bp):   
CACGTGGCATGCCACGTGTCACTTTTTGGTA

Found at i:13268 original size:10 final size:10

Alignment explanation


    Indices: 13253--13286  Score: 59
    Period size: 10  Copynumber: 3.4  Consensus size: 10

      13243 TTGAGTTTGT

                      
      13253 TTTGAGTCGG
          1 TTTGAGTCGG

                      
      13263 TTTGAGTCGG
          1 TTTGAGTCGG

                    * 
      13273 TTTGAGTCAG
          1 TTTGAGTCGG

                
      13283 TTTG
          1 TTTG

      13287 TTTTTTTAGT


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  10   23  1.00

ACGTcount: A:0.12, C:0.09, G:0.35, T:0.44


Consensus pattern (10 bp):   
TTTGAGTCGG
Done.