Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022811.1 Corchorus olitorius cultivar O-4 contig22844, 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: 25788
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34


Found at i:8616 original size:17 final size:17

Alignment explanation


    Indices: 8589--8621  Score: 50
    Period size: 16  Copynumber: 1.9  Consensus size: 17

       8579 TCTAATTTAG

                              
       8589 TTTTGCTTTATTTATTGC
          1 TTTTGCTTTA-TTATTGC

                            
       8607 TTTT-CTTTATTATTG
          1 TTTTGCTTTATTATTG

       8622 GTATTTTTAA


Statistics
Matches: 15,  Mismatches: 0, Indels: 2
        0.88            0.00        0.12

Matches are distributed among these distances:
  16    6  0.40
  17    5  0.33
  18    4  0.27

ACGTcount: A:0.12, C:0.09, G:0.09, T:0.70


Consensus pattern (17 bp):   
TTTTGCTTTATTATTGC

Found at i:25433 original size:21 final size:21

Alignment explanation


    Indices: 25407--25456  Score: 75
    Period size: 21  Copynumber: 2.4  Consensus size: 21

      25397 CCAATTCGAG

                          *       
      25407 CTGGGCGCTGA-GCCTTGTCGC
          1 CTGGGCGCTGAGGCATT-TCGC

                                 
      25428 CTGGGCGCTGAGGCATTTCGC
          1 CTGGGCGCTGAGGCATTTCGC

                    
      25449 CTGGGCGC
          1 CTGGGCGC

      25457 CCAGCGGCAA


Statistics
Matches: 27,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  21   23  0.85
  22    4  0.15

ACGTcount: A:0.06, C:0.32, G:0.40, T:0.22


Consensus pattern (21 bp):   
CTGGGCGCTGAGGCATTTCGC
Done.