Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006083.1 Corchorus olitorius cultivar O-4 contig06108, 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: 1800
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36


Found at i:827 original size:21 final size:22

Alignment explanation


    Indices: 801--884  Score: 91
    Period size: 22  Copynumber: 3.9  Consensus size: 22

        791 TCTCACAAAG

                         *        
        801 AGGTTATCAAAA-ATCATAGGA
          1 AGGTTATCAAAATTTCATAGGA

                                  
        822 AGGTTA-CAAAATTTCATAGGA
          1 AGGTTATCAAAATTTCATAGGA

               *    *            **
        843 ATGTTTATTAAAATTTCATAGTT
          1 A-GGTTATCAAAATTTCATAGGA

                       *       
        866 AGGTTATCAAAGTTTCATA
          1 AGGTTATCAAAATTTCATA

        885 TTTTATAGGT


Statistics
Matches: 52,  Mismatches: 8, Indels: 5
        0.80            0.12        0.08

Matches are distributed among these distances:
  20    5  0.10
  21   15  0.29
  22   19  0.37
  23   13  0.25

ACGTcount: A:0.40, C:0.08, G:0.15, T:0.36


Consensus pattern (22 bp):   
AGGTTATCAAAATTTCATAGGA

Found at i:936 original size:22 final size:22

Alignment explanation


    Indices: 898--951  Score: 63
    Period size: 22  Copynumber: 2.5  Consensus size: 22

        888 TATAGGTAAA

                        *       **
        898 TTATCAAAATTCCATAACGTGG
          1 TTATCAAAATTCAATAACGTAC

                       *     *    
        920 TTATCAAAATTTAATAAGGTAC
          1 TTATCAAAATTCAATAACGTAC

                      
        942 TTATCAAAAT
          1 TTATCAAAAT

        952 CTTATAAAAA


Statistics
Matches: 27,  Mismatches: 5, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  22   27  1.00

ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35


Consensus pattern (22 bp):   
TTATCAAAATTCAATAACGTAC
Done.