Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017689.1 Corchorus olitorius cultivar O-4 contig17722, 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: 2182
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36


Found at i:162 original size:19 final size:19

Alignment explanation


    Indices: 138--175  Score: 76
    Period size: 19  Copynumber: 2.0  Consensus size: 19

        128 ATTCTAATGT

                               
        138 CTATTCAAATAATTATCTA
          1 CTATTCAAATAATTATCTA

                               
        157 CTATTCAAATAATTATCTA
          1 CTATTCAAATAATTATCTA

        176 TTGGATCCCT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42


Consensus pattern (19 bp):   
CTATTCAAATAATTATCTA

Found at i:938 original size:92 final size:92

Alignment explanation


    Indices: 782--958  Score: 302
    Period size: 92  Copynumber: 1.9  Consensus size: 92

        772 TCTAAAATGT

                                           **                                
        782 CCTTTTTAATTTTAAATATTATCAATAACTTTTAAGGTTTAATATGTAATTTTATTTATCAATT-
          1 CCTTTTTAATTTTAAATATTATCAATAACTTGAAAGGTTTAATATGTAATTTTATTTATCAATTA

                                       
        846 AATTAAGAATTATATATCATGTGTCGA
         66 AATTAAGAATTATATATCATGTGTCGA

                                                                             
        873 CCTTTTTAATTTTTAAATATTATCAATAACTTGAAAGGTTTAATATGTAATTTTATTTATCAATT
          1 CCTTTTTAA-TTTTAAATATTATCAATAACTTGAAAGGTTTAATATGTAATTTTATTTATCAATT

                    *     *      
        938 AAATTAAGGATTATTTATCAT
         65 AAATTAAGAATTATATATCAT

        959 ATTCATGTGT


Statistics
Matches: 80,  Mismatches: 4, Indels: 2
        0.93            0.05        0.02

Matches are distributed among these distances:
  91    9  0.11
  92   53  0.66
  93   18  0.22

ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49


Consensus pattern (92 bp):   
CCTTTTTAATTTTAAATATTATCAATAACTTGAAAGGTTTAATATGTAATTTTATTTATCAATTA
AATTAAGAATTATATATCATGTGTCGA
Done.