Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023982.1 Corchorus olitorius cultivar O-4 contig24015, 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: 6048
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34


Found at i:5788 original size:57 final size:56

Alignment explanation


    Indices: 5698--5812  Score: 203
    Period size: 57  Copynumber: 2.0  Consensus size: 56

       5688 TATCCGTTTC

                                        *                   *        
       5698 CTTTCACACAATAAATATTATAATAAATTCTATCCCCTCTATCTCTACTTAATTATT
          1 CTTTCACACAATAAATATTATAATAAATCCTATCCCC-CTATCTCTACATAATTATT

                                                                    
       5755 CTTTCACACAATAAATATTATAATAAATCCTATCCCCCTATCTCTACATAATTATT
          1 CTTTCACACAATAAATATTATAATAAATCCTATCCCCCTATCTCTACATAATTATT

              
       5811 CT
          1 CT

       5813 ACAAAATAAA


Statistics
Matches: 56,  Mismatches: 2, Indels: 1
        0.95            0.03        0.02

Matches are distributed among these distances:
  56   20  0.36
  57   36  0.64

ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40


Consensus pattern (56 bp):   
CTTTCACACAATAAATATTATAATAAATCCTATCCCCCTATCTCTACATAATTATT

Found at i:5937 original size:42 final size:42

Alignment explanation


    Indices: 5878--5958  Score: 144
    Period size: 42  Copynumber: 1.9  Consensus size: 42

       5868 TGAGGATCAA

                                  *        *          
       5878 GATTTGAGTTGAGTATTTCTTAGTTTACAAATAATTTTCTAT
          1 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTAT

                                                   
       5920 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTC
          1 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTC

       5959 AAGACTTAGC


Statistics
Matches: 37,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  42   37  1.00

ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48


Consensus pattern (42 bp):   
GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTAT
Done.