Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008749.1 Corchorus olitorius cultivar O-4 contig08776, 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, 730

Length: 1217
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37


Found at i:8 original size:2 final size:2

Alignment explanation


    Indices: 2--29  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

          1 T

                                                     
          2 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA

         30 CGGTATTAAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:856 original size:20 final size:20

Alignment explanation


    Indices: 833--870  Score: 51
    Period size: 20  Copynumber: 1.9  Consensus size: 20

        823 AATTTAGTTT

                                 
        833 AAAAGG-TATAAATATTATTA
          1 AAAAGGTTAT-AATATTATTA

                *             
        853 AAAATGTTATAATATTAT
          1 AAAAGGTTATAATATTAT

        871 AATAAATTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 2
        0.84            0.05        0.11

Matches are distributed among these distances:
  20   13  0.81
  21    3  0.19

ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39


Consensus pattern (20 bp):   
AAAAGGTTATAATATTATTA

Found at i:877 original size:20 final size:19

Alignment explanation


    Indices: 843--886  Score: 54
    Period size: 19  Copynumber: 2.3  Consensus size: 19

        833 AAAAGGTATA

                             *  
        843 AATATTATTAAAAATGTTAT
          1 AATATTATTAAAAAT-TCAT

                                
        863 AATATTA-TAATAAATTCAT
          1 AATATTATTAA-AAATTCAT

                 
        882 AATAT
          1 AATAT

        887 CTTACATTCT


Statistics
Matches: 22,  Mismatches: 1, Indels: 3
        0.85            0.04        0.12

Matches are distributed among these distances:
  19   11  0.50
  20   11  0.50

ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43


Consensus pattern (19 bp):   
AATATTATTAAAAATTCAT
Done.