Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006352.1 Corchorus olitorius cultivar O-4 contig06377, 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, 703

Length: 1173
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24


Found at i:396 original size:26 final size:27

Alignment explanation


    Indices: 354--424  Score: 81
    Period size: 26  Copynumber: 2.7  Consensus size: 27

        344 AGTGAACTTA

                *       *            * 
        354 AAATTACCAAAACGCCCCTAAATGTGC
          1 AAATGACCAAAATGCCCCTAAATGTAC

                             * *       
        381 -AATGACCAAAATGCCCGTGAATGTAC
          1 AAATGACCAAAATGCCCCTAAATGTAC

                   *          
        407 AAATGACTAAAATGCCCC
          1 AAATGACCAAAATGCCCC

        425 CGAGCGTGCA


Statistics
Matches: 36,  Mismatches: 7, Indels: 2
        0.80            0.16        0.04

Matches are distributed among these distances:
  26   21  0.58
  27   15  0.42

ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18


Consensus pattern (27 bp):   
AAATGACCAAAATGCCCCTAAATGTAC

Found at i:884 original size:30 final size:30

Alignment explanation


    Indices: 871--1173  Score: 507
    Period size: 30  Copynumber: 10.1  Consensus size: 30

        861 ATCAATATTG

                                          
        871 AAATAAAGCAATGATCCTCAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

                                          
        901 AAATAAAGCAATGATCCTCAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

            * *             *             
        931 GAGTAAAGCAATGATCTTCAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

                *                         
        961 AAATGAAGCAATGATCCTCAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

                                          
        991 AAATAAAGCAATGATCCTCAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

                *             *           
       1021 AAATGAAGCAATGATCCTAAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

                       *                  
       1051 AAATAAAGCAACGATCCTCAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

                *                         
       1081 AAATGAAGCAATGATCCTCAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

                    *  *                  
       1111 AAATAAAGTAACGATCCTCAACCAGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

                                   *      
       1141 AAATAAAGCAATGATCCTCAACCGGGATTA
          1 AAATAAAGCAATGATCCTCAACCAGGATTA

               
       1171 AAA
          1 AAA


Statistics
Matches: 252,  Mismatches: 21, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  30  252  1.00

ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20


Consensus pattern (30 bp):   
AAATAAAGCAATGATCCTCAACCAGGATTA

Done.