Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008632.1 Corchorus olitorius cultivar O-4 contig08659, 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, 624

Length: 1041
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25


Found at i:576 original size:21 final size:21

Alignment explanation


    Indices: 551--606  Score: 87
    Period size: 21  Copynumber: 2.7  Consensus size: 21

        541 AAGAATTAGT

                     *            
        551 GCGCCGAGATGAAGAGGCGAAA
          1 GCGCCGAGAAGAAGAGGC-AAA

                                 
        573 -CGCCGAGAAGAAGAGGCAAA
          1 GCGCCGAGAAGAAGAGGCAAA

                          
        593 GCGCCGAGAAGAAG
          1 GCGCCGAGAAGAAG

        607 CCACAAACGC


Statistics
Matches: 32,  Mismatches: 1, Indels: 3
        0.89            0.03        0.08

Matches are distributed among these distances:
  20    3  0.09
  21   29  0.91

ACGTcount: A:0.39, C:0.20, G:0.39, T:0.02


Consensus pattern (21 bp):   
GCGCCGAGAAGAAGAGGCAAA

Found at i:613 original size:21 final size:21

Alignment explanation


    Indices: 551--613  Score: 56
    Period size: 21  Copynumber: 3.0  Consensus size: 21

        541 AAGAATTAGT

                     *     **     
        551 GCGCCGAGATGAAGAGGCGAAA
          1 GCGCCGAGAAGAAGACAC-AAA

                           **    
        573 -CGCCGAGAAGAAGAGGCAAA
          1 GCGCCGAGAAGAAGACACAAA

                          *      
        593 GCGCCGAGAAGAAGCCACAAA
          1 GCGCCGAGAAGAAGACACAAA

        614 CGCTCAGATG


Statistics
Matches: 36,  Mismatches: 4, Indels: 3
        0.84            0.09        0.07

Matches are distributed among these distances:
  20    3  0.08
  21   33  0.92

ACGTcount: A:0.41, C:0.22, G:0.35, T:0.02


Consensus pattern (21 bp):   
GCGCCGAGAAGAAGACACAAA
Done.