Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013966.1 Corchorus capsularis cultivar CVL-1 contig13987, 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: 9884
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33


Found at i:7509 original size:21 final size:21

Alignment explanation


    Indices: 7483--7573  Score: 94
    Period size: 21  Copynumber: 4.3  Consensus size: 21

       7473 AGCCTGCACT

                          *  *   
       7483 GTGCCACCACCGGCTACCTCC
          1 GTGCCACCACCGGCCACATCC

                   * * *         
       7504 GTGCCACGATCAGCCACATCC
          1 GTGCCACCACCGGCCACATCC

             *    *         *    
       7525 GCGCCAGCACCGGCCATATCC
          1 GTGCCACCACCGGCCACATCC

                                  
       7546 GCT-CCACCACCGGCCACATCC
          1 G-TGCCACCACCGGCCACATCC

                   
       7567 GTGCCAC
          1 GTGCCAC

       7574 ATACGCCTTG


Statistics
Matches: 54,  Mismatches: 14, Indels: 4
        0.75            0.19        0.06

Matches are distributed among these distances:
  20    1  0.02
  21   53  0.98

ACGTcount: A:0.19, C:0.49, G:0.20, T:0.12


Consensus pattern (21 bp):   
GTGCCACCACCGGCCACATCC

Found at i:8890 original size:21 final size:21

Alignment explanation


    Indices: 8864--8916  Score: 72
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       8854 GCACTGGAGT

                   *   * *       
       8864 ACATGGGTCGCGAGGCAAACC
          1 ACATGGGGCGCCAAGCAAACC

                                 
       8885 ACATGGGGCGCCAAGCAAACC
          1 ACATGGGGCGCCAAGCAAACC

                        
       8906 ACAT-GGGCGCC
          1 ACATGGGGCGCC

       8917 CAGCGCTAGT


Statistics
Matches: 29,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
  20    7  0.24
  21   22  0.76

ACGTcount: A:0.28, C:0.32, G:0.32, T:0.08


Consensus pattern (21 bp):   
ACATGGGGCGCCAAGCAAACC

Done.