Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004318.1 Corchorus olitorius cultivar O-4 contig04331, 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, 693

Length: 1155
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24


Found at i:968 original size:27 final size:28

Alignment explanation


    Indices: 938--1000  Score: 74
    Period size: 31  Copynumber: 2.2  Consensus size: 28

        928 GCAAGCCTAC

                     *          *       
        938 ATAGGG-TACAAGATCGAAAGGAACCCT
          1 ATAGGGCTAAAAGATCGAAAAGAACCCT

                                           
        965 ATAGGCAGGCTAAAAGATCGAAAAGAACCCT
          1 ATA-G--GGCTAAAAGATCGAAAAGAACCCT

                 
        996 ATAGG
          1 ATAGG

       1001 CAGGCTAAAA


Statistics
Matches: 30,  Mismatches: 2, Indels: 7
        0.77            0.05        0.18

Matches are distributed among these distances:
  27    3  0.10
  28    2  0.07
  30    3  0.10
  31   22  0.73

ACGTcount: A:0.43, C:0.17, G:0.25, T:0.14


Consensus pattern (28 bp):   
ATAGGGCTAAAAGATCGAAAAGAACCCT

Found at i:982 original size:31 final size:31

Alignment explanation


    Indices: 947--1011  Score: 121
    Period size: 31  Copynumber: 2.1  Consensus size: 31

        937 CATAGGGTAC

                      *                    
        947 AAGATCGAAAGGAACCCTATAGGCAGGCTAA
          1 AAGATCGAAAAGAACCCTATAGGCAGGCTAA

                                           
        978 AAGATCGAAAAGAACCCTATAGGCAGGCTAA
          1 AAGATCGAAAAGAACCCTATAGGCAGGCTAA

               
       1009 AAG
          1 AAG

       1012 CGCTGTCCGT


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  31   33  1.00

ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12


Consensus pattern (31 bp):   
AAGATCGAAAAGAACCCTATAGGCAGGCTAA
Done.