Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021318.1 Corchorus olitorius cultivar O-4 contig21351, 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: 12803
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28


Found at i:6295 original size:38 final size:39

Alignment explanation


    Indices: 6253--6326  Score: 96
    Period size: 39  Copynumber: 1.9  Consensus size: 39

       6243 TTTCTCCATG

                      *         *                  
       6253 TTTAGAATT-TCATCTAAGTTAACCTGCTTAGGTCCCCA
          1 TTTAGAATTGCCATCTAAGTAAACCTGCTTAGGTCCCCA

                  *       *  *                  
       6291 TTTAGAGTTGCCATTTAGGTAAACCTGCTTAGGTCC
          1 TTTAGAATTGCCATCTAAGTAAACCTGCTTAGGTCC

       6327 AAGATTAGAA


Statistics
Matches: 30,  Mismatches: 5, Indels: 1
        0.83            0.14        0.03

Matches are distributed among these distances:
  38    8  0.27
  39   22  0.73

ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36


Consensus pattern (39 bp):   
TTTAGAATTGCCATCTAAGTAAACCTGCTTAGGTCCCCA

Found at i:10714 original size:28 final size:27

Alignment explanation


    Indices: 10676--10772  Score: 106
    Period size: 28  Copynumber: 3.5  Consensus size: 27

      10666 ATCTAAGGGA

                              *          
      10676 ATTTTGGGTCATTTTCAAAATCCAGGGGC
          1 ATTTT-GGTCATTTTC-ATATCCAGGGGC

                                *      *
      10705 ATTTTGGTCATTTGT-ATATTCAGGGGT
          1 ATTTTGGTCATTT-TCATATCCAGGGGC

                 *            *         
      10732 ATTTTAGTCATTTTGCATGTCCAGGGGC
          1 ATTTTGGTCATTTT-CATATCCAGGGGC

                         
      10760 ATTTTGGTCATTT
          1 ATTTTGGTCATTT

      10773 CTACTCCATT


Statistics
Matches: 57,  Mismatches: 8, Indels: 7
        0.79            0.11        0.10

Matches are distributed among these distances:
  26    1  0.02
  27   21  0.37
  28   29  0.51
  29    6  0.11

ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43


Consensus pattern (27 bp):   
ATTTTGGTCATTTTCATATCCAGGGGC

Done.