Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002423.1 Corchorus olitorius cultivar O-4 contig02423, 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, 667

Length: 1113
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35


Found at i:745 original size:22 final size:22

Alignment explanation


    Indices: 712--790  Score: 65
    Period size: 22  Copynumber: 3.5  Consensus size: 22

        702 TGCCACAAGA

                  *            *  
        712 AAATTTGA-TAACCTTCCTTTG
          1 AAATTTTAGTAACCTTCCTATG

                                     
        733 AAATTTTAGTAACCTAATCCCTAT-
          1 AAATTTTAGTAACCT--T-CCTATG

                              *    
        757 AAATTTT-GATAACCTTCATATG
          1 AAATTTTAG-TAACCTTCCTATG

                   *    
        779 AAATTTTGGTAA
          1 AAATTTTAGTAA

        791 GCGCATTATG


Statistics
Matches: 48,  Mismatches: 3, Indels: 13
        0.75            0.05        0.20

Matches are distributed among these distances:
  21   11  0.23
  22   17  0.35
  23    2  0.04
  24   14  0.29
  25    4  0.08

ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41


Consensus pattern (22 bp):   
AAATTTTAGTAACCTTCCTATG

Found at i:827 original size:21 final size:22

Alignment explanation


    Indices: 774--824  Score: 66
    Period size: 22  Copynumber: 2.3  Consensus size: 22

        764 GATAACCTTC

                       *     * *  
        774 ATATGAAATTTTGGTAAGCGCA
          1 ATATGAAATTTGGGTAACCACA

            *                     
        796 TTATGAAATTTGGGTAACCACA
          1 ATATGAAATTTGGGTAACCACA

                   
        818 ATATGAA
          1 ATATGAA

        825 TTTTTTATAA


Statistics
Matches: 24,  Mismatches: 5, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  22   24  1.00

ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31


Consensus pattern (22 bp):   
ATATGAAATTTGGGTAACCACA
Done.