Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019270.1 Corchorus olitorius cultivar O-4 contig19303, 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: 1788
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36


Found at i:741 original size:17 final size:16

Alignment explanation


    Indices: 694--746  Score: 56
    Period size: 17  Copynumber: 3.2  Consensus size: 16

        684 AGTATACAGT

                             
        694 ATAACCTCCATAAATTA
          1 ATAACCTCC-TAAATTA

                     *       
        711 AT-A-CTCAATAAATTA
          1 ATAACCTC-CTAAATTA

                             
        726 ATAACCTCTCTAAATTA
          1 ATAACCTC-CTAAATTA

                
        743 ATAA
          1 ATAA

        747 TTTTTCATAG


Statistics
Matches: 30,  Mismatches: 3, Indels: 6
        0.77            0.08        0.15

Matches are distributed among these distances:
  15   12  0.40
  16    2  0.07
  17   16  0.53

ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32


Consensus pattern (16 bp):   
ATAACCTCCTAAATTA

Found at i:842 original size:76 final size:76

Alignment explanation


    Indices: 703--850  Score: 219
    Period size: 76  Copynumber: 1.9  Consensus size: 76

        693 TATAACCTCC

                     *                                              *        
        703 ATAAATTAATACTCAATAAATTAATAACCTCTCTAAATTAATAATTTTTCATAGCCCCAACATTA
          1 ATAAATTAACACTCAATAAATTAATAACCTCTCTAAATTAATAATTTTTCATAGCCACAACATTA

                       
        768 TTAATTTTTAT
         66 TTAATTTTTAT

                          *                                         *   *    
        779 ATAAATTAACACTCGATAAATTAATAACCTCTCTAAATTGAA-AATTTTTCAT-GATCACGACAT
          1 ATAAATTAACACTCAATAAATTAATAACCTCTCTAAATT-AATAATTTTTCATAG-CCACAACAT

                     
        842 TATTAATTT
         64 TATTAATTT

        851 ATAGAGGTTT


Statistics
Matches: 65,  Mismatches: 5, Indels: 4
        0.88            0.07        0.05

Matches are distributed among these distances:
  75    1  0.02
  76   62  0.95
  77    2  0.03

ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39


Consensus pattern (76 bp):   
ATAAATTAACACTCAATAAATTAATAACCTCTCTAAATTAATAATTTTTCATAGCCACAACATTA
TTAATTTTTAT
Done.