Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001174.1 Corchorus olitorius cultivar O-4 contig01174, 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, 629

Length: 1049
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24


Found at i:399 original size:21 final size:21

Alignment explanation


    Indices: 375--487  Score: 158
    Period size: 21  Copynumber: 5.4  Consensus size: 21

        365 CTTAGGCATT

                         *       
        375 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                    *            
        396 TCCAATGATCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                    *          * 
        417 TCCAATGAACTTGGAACCTGC
          1 TCCAATGAGCTTGGAACCTTC

                                  
        438 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                                  
        459 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                    
        480 TCCAATGA
          1 TCCAATGA

        488 ACTTCTAGCA


Statistics
Matches: 85,  Mismatches: 6, Indels: 2
        0.91            0.06        0.02

Matches are distributed among these distances:
  20    2  0.02
  21   83  0.98

ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28


Consensus pattern (21 bp):   
TCCAATGAGCTTGGAACCTTC

Found at i:600 original size:22 final size:22

Alignment explanation


    Indices: 572--615  Score: 88
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        562 CTTCTAGACC

                                  
        572 ATGATGAGTCCTTGGCGCATCA
          1 ATGATGAGTCCTTGGCGCATCA

                                  
        594 ATGATGAGTCCTTGGCGCATCA
          1 ATGATGAGTCCTTGGCGCATCA

        616 CACACCCACT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27


Consensus pattern (22 bp):   
ATGATGAGTCCTTGGCGCATCA
Done.