Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021067.1 Corchorus olitorius cultivar O-4 contig21100, 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: 2208
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34


Found at i:1790 original size:29 final size:29

Alignment explanation


    Indices: 1756--1871  Score: 121
    Period size: 29  Copynumber: 4.1  Consensus size: 29

       1746 GCTTAATTTG

                  *                      
       1756 CATTTTCGCACATCCAGGGGCATTTTGGT
          1 CATTTTTGCACATCCAGGGGCATTTTGGT

                      *  *          *    
       1785 CATTTTTGCATATTCAGGGGCATTATGGT
          1 CATTTTTGCACATCCAGGGGCATTTTGGT

                         *      *        
       1814 CATTTTTGCACATTCAGGGGTATTTTGGT
          1 CATTTTTGCACATCCAGGGGCATTTTGGT

               *    *          **        
       1843 -A-ATTTGTAC-TCCAGGGATATTTTGGT
          1 CATTTTTGCACATCCAGGGGCATTTTGGT

               
       1869 CAT
          1 CAT

       1872 GTTTAGTTCA


Statistics
Matches: 74,  Mismatches: 11, Indels: 5
        0.82            0.12        0.06

Matches are distributed among these distances:
  26   15  0.20
  27    7  0.09
  28    1  0.01
  29   51  0.69

ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41


Consensus pattern (29 bp):   
CATTTTTGCACATCCAGGGGCATTTTGGT

Found at i:2105 original size:30 final size:30

Alignment explanation


    Indices: 2069--2132  Score: 119
    Period size: 30  Copynumber: 2.1  Consensus size: 30

       2059 TGTCAATTAT

                             *            
       2069 TTGGATTAATTCACATTTTTAAGTATAGAG
          1 TTGGATTAATTCACATTGTTAAGTATAGAG

                                          
       2099 TTGGATTAATTCACATTGTTAAGTATAGAG
          1 TTGGATTAATTCACATTGTTAAGTATAGAG

                
       2129 TTGG
          1 TTGG

       2133 CATTTTAATT


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  30   33  1.00

ACGTcount: A:0.31, C:0.06, G:0.20, T:0.42


Consensus pattern (30 bp):   
TTGGATTAATTCACATTGTTAAGTATAGAG
Done.