Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009412.1 Corchorus olitorius cultivar O-4 contig09443, 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, 733

Length: 1223
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24


Found at i:930 original size:27 final size:28

Alignment explanation


    Indices: 900--962  Score: 83
    Period size: 31  Copynumber: 2.2  Consensus size: 28

        890 GCAAGCCTAC

                     *                  
        900 ATAGGG-TACAAGATCGAAAAGAACCCT
          1 ATAGGGCTAAAAGATCGAAAAGAACCCT

                                           
        927 ATAGGCAGGCTAAAAGATCGAAAAGAACCCT
          1 ATA-G--GGCTAAAAGATCGAAAAGAACCCT

                 
        958 ATAGG
          1 ATAGG

        963 CAGGCTAAAA


Statistics
Matches: 31,  Mismatches: 1, Indels: 7
        0.79            0.03        0.18

Matches are distributed among these distances:
  27    3  0.10
  28    2  0.06
  30    3  0.10
  31   23  0.74

ACGTcount: A:0.44, C:0.17, G:0.24, T:0.14


Consensus pattern (28 bp):   
ATAGGGCTAAAAGATCGAAAAGAACCCT

Found at i:944 original size:31 final size:31

Alignment explanation


    Indices: 909--973  Score: 130
    Period size: 31  Copynumber: 2.1  Consensus size: 31

        899 CATAGGGTAC

                                           
        909 AAGATCGAAAAGAACCCTATAGGCAGGCTAA
          1 AAGATCGAAAAGAACCCTATAGGCAGGCTAA

                                           
        940 AAGATCGAAAAGAACCCTATAGGCAGGCTAA
          1 AAGATCGAAAAGAACCCTATAGGCAGGCTAA

               
        971 AAG
          1 AAG

        974 CGCTGTCCGT


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  31   34  1.00

ACGTcount: A:0.46, C:0.18, G:0.23, T:0.12


Consensus pattern (31 bp):   
AAGATCGAAAAGAACCCTATAGGCAGGCTAA
Done.