Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002164.1 Corchorus olitorius cultivar O-4 contig02164, 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, 686

Length: 1144
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31


Found at i:243 original size:21 final size:21

Alignment explanation


    Indices: 219--394  Score: 259
    Period size: 21  Copynumber: 8.4  Consensus size: 21

        209 CTTAGGCATT

                         *       
        219 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                    *            
        240 TCCAATGATCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                    *            
        261 TCCAATGAACTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                    *            
        282 TCCAATGAACTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                  
        303 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                    *            
        324 TCCAATGAACTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                  
        345 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                                  
        366 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                    
        387 TCCAATGA
          1 TCCAATGA

        395 ACTTCTAGCA


Statistics
Matches: 146,  Mismatches: 6, Indels: 6
        0.92            0.04        0.04

Matches are distributed among these distances:
  20    6  0.04
  21  137  0.94
  22    3  0.02

ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29


Consensus pattern (21 bp):   
TCCAATGAGCTTGGAACCTTC

Found at i:303 original size:63 final size:63

Alignment explanation


    Indices: 219--398  Score: 301
    Period size: 63  Copynumber: 2.9  Consensus size: 63

        209 CTTAGGCATT

                         *               *                                  
        219 TCCAATGAGCTTGAAACCTTCTCCAATGATCTTGGAACCTT-CTCCAATGAACTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTCTCCAATGAGCTTGGAA-CTTGCTCCAATGAACTTGGAACCTTC

                    *                                                      
        282 TCCAATGAACTTGGAACCTTCTCCAATGAGCTTGGAACTTGCTCCAATGAACTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTCTCCAATGAGCTTGGAACTTGCTCCAATGAACTTGGAACCTTC

                                                                   
        345 TCCAATGAGCTTGGAA-CTTGCTCCAATGAGCTTGGAACTTGCTCCAATGAACTT
          1 TCCAATGAGCTTGGAACCTT-CTCCAATGAGCTTGGAACTTGCTCCAATGAACTT

        399 CTAGCATCTT


Statistics
Matches: 111,  Mismatches: 4, Indels: 4
        0.93            0.03        0.03

Matches are distributed among these distances:
  62    6  0.05
  63  105  0.95

ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29


Consensus pattern (63 bp):   
TCCAATGAGCTTGGAACCTTCTCCAATGAGCTTGGAACTTGCTCCAATGAACTTGGAACCTTC
Done.