Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008588.1 Corchorus olitorius cultivar O-4 contig08615, 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, 817

Length: 1362
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32


Found at i:733 original size:21 final size:21

Alignment explanation


    Indices: 707--882  Score: 259
    Period size: 21  Copynumber: 8.4  Consensus size: 21

        697 TGCTAGAAGT

                                  
        707 TCATTGGAGCAA-GTTCCAAGC
          1 TCATTGGAG-AAGGTTCCAAGC

                                  
        728 TCATTGGAGCAA-GTTCCAAGC
          1 TCATTGGAG-AAGGTTCCAAGC

                                *
        749 TCATTGGAGAAGGTTCCAAGT
          1 TCATTGGAGAAGGTTCCAAGC

                                  
        770 TCATTGGAGCAA-GTTCCAAGC
          1 TCATTGGAG-AAGGTTCCAAGC

                                *
        791 TCATTGGAGAAGGTTCCAAGT
          1 TCATTGGAGAAGGTTCCAAGC

                                *
        812 TCATTGGAGAAGGTTCCAAGT
          1 TCATTGGAGAAGGTTCCAAGC

                                *
        833 TCATTGGAGAAGGTTCCAAGA
          1 TCATTGGAGAAGGTTCCAAGC

                           *     
        854 TCATTGGAGAAGGTTTCAAGC
          1 TCATTGGAGAAGGTTCCAAGC

                    
        875 TCATTGGA
          1 TCATTGGA

        883 ATTGCCTAAG


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

Matches are distributed among these distances:
  20    4  0.03
  21  140  0.96
  22    2  0.01

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


Consensus pattern (21 bp):   
TCATTGGAGAAGGTTCCAAGC

Found at i:776 original size:63 final size:63

Alignment explanation


    Indices: 703--882  Score: 301
    Period size: 63  Copynumber: 2.9  Consensus size: 63

        693 AAGATGCTAG

                                                                            
        703 AAGTTCATTGGAGCAAGTTCCAAGCTCATTGGAGCAA-GTTCCAAGCTCATTGGAGAAGGTTCC
          1 AAGTTCATTGGAGCAAGTTCCAAGCTCATTGGAG-AAGGTTCCAAGCTCATTGGAGAAGGTTCC

                                                         *                 
        766 AAGTTCATTGGAGCAAGTTCCAAGCTCATTGGAGAAGGTTCCAAGTTCATTGGAGAAGGTTCC
          1 AAGTTCATTGGAGCAAGTTCCAAGCTCATTGGAGAAGGTTCCAAGCTCATTGGAGAAGGTTCC

                                     *               *             
        829 AAGTTCATTGGAG-AAGGTTCCAAGATCATTGGAGAAGGTTTCAAGCTCATTGGA
          1 AAGTTCATTGGAGCAA-GTTCCAAGCTCATTGGAGAAGGTTCCAAGCTCATTGGA

        883 ATTGCCTAAG


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

Matches are distributed among these distances:
  62    4  0.04
  63  107  0.96

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


Consensus pattern (63 bp):   
AAGTTCATTGGAGCAAGTTCCAAGCTCATTGGAGAAGGTTCCAAGCTCATTGGAGAAGGTTCC
Done.