Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015300.1 Corchorus olitorius cultivar O-4 contig15333, 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, 1000

Length: 11128
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29


Found at i:454 original size:19 final size:19

Alignment explanation


    Indices: 426--469  Score: 79
    Period size: 19  Copynumber: 2.3  Consensus size: 19

        416 AGCCGAGAGC

                 *             
        426 GACTTCACTGGCTCGGCCT
          1 GACTTTACTGGCTCGGCCT

                               
        445 GACTTTACTGGCTCGGCCT
          1 GACTTTACTGGCTCGGCCT

                  
        464 GACTTT
          1 GACTTT

        470 GACAATATAT


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  19   24  1.00

ACGTcount: A:0.11, C:0.32, G:0.25, T:0.32


Consensus pattern (19 bp):   
GACTTTACTGGCTCGGCCT

Found at i:3755 original size:189 final size:188

Alignment explanation


    Indices: 3436--3795  Score: 684
    Period size: 189  Copynumber: 1.9  Consensus size: 188

       3426 CTTGAACCGC

                              *                                              
       3436 TAGGCCAGTAGGGTGTCTTCTTGGTGACAGCTCGTCCACATCATAAAGAAAAAAAAAGTCCACTA
          1 TAGGCCAGTAGGGTGTCTCCTTGGTGACAGCTCGTCCACATCATAAAGAAAAAAAAAGTCCACTA

                                                                             
       3501 AGGTTGAGGCCAAGTATAGAAAAATTAGGTGCAACACATATCTAGCTTGGCAACAAAGGCCGGTA
         66 AGGTTGAGGCCAAGTATAGAAAAATTAGGTGCAACACATATCTAGCTTGGCAACAAAGGCCGGTA

                                                                      
       3566 GCAACATTCCATCCAAAACTGTACTAAATACTGTATACTAGCACAAGTATAGAAAAAT
        131 GCAACATTCCATCCAAAACTGTACTAAATACTGTATACTAGCACAAGTATAGAAAAAT

                                                                             
       3624 TAGGCCAGTAGGGTGTCTCCTTGGTGACAGCTCGTCCACATCATAAAGAAAAAAAAAAGTCCACT
          1 TAGGCCAGTAGGGTGTCTCCTTGGTGACAGCTCGTCCACATCATAAAG-AAAAAAAAAGTCCACT

                                                          *                  
       3689 AAGGTTGAGGCCAAGTATAGAAAAATTAGGTGCAACACATATCTAGTTTGGCAACAAAGGCCGGT
         65 AAGGTTGAGGCCAAGTATAGAAAAATTAGGTGCAACACATATCTAGCTTGGCAACAAAGGCCGGT

               *                                      
       3754 AGCGACATTCCATCCAAAACTGTACTAAATACTGTATACTAG
        130 AGCAACATTCCATCCAAAACTGTACTAAATACTGTATACTAG

       3796 TACTAAATAC


Statistics
Matches: 168,  Mismatches: 3, Indels: 1
        0.98            0.02        0.01

Matches are distributed among these distances:
 188   47  0.28
 189  121  0.72

ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23


Consensus pattern (188 bp):   
TAGGCCAGTAGGGTGTCTCCTTGGTGACAGCTCGTCCACATCATAAAGAAAAAAAAAGTCCACTA
AGGTTGAGGCCAAGTATAGAAAAATTAGGTGCAACACATATCTAGCTTGGCAACAAAGGCCGGTA
GCAACATTCCATCCAAAACTGTACTAAATACTGTATACTAGCACAAGTATAGAAAAAT
Done.