Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022742.1 Corchorus olitorius cultivar O-4 contig22775, 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: 4541
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31

Warning! 2 characters in sequence are not A, C, G, or T


Found at i:2126 original size:28 final size:27

Alignment explanation


    Indices: 2068--2153  Score: 127
    Period size: 27  Copynumber: 3.1  Consensus size: 27

       2058 TGAAATCACT

                     *     *           
       2068 AAAATGCCCCTGGACGTGCAAATGACC
          1 AAAATGCCCATGGACATGCAAATGACC

                 *         *            
       2095 AAAATACCCATGGACCTGCAAAATGACC
          1 AAAATGCCCATGGACATGC-AAATGACC

                                       
       2123 AAAATGCCCATGGACATGCAAATGACC
          1 AAAATGCCCATGGACATGCAAATGACC

                
       2150 AAAA
          1 AAAA

       2154 GAAGTAAATT


Statistics
Matches: 53,  Mismatches: 5, Indels: 2
        0.88            0.08        0.03

Matches are distributed among these distances:
  27   28  0.53
  28   25  0.47

ACGTcount: A:0.42, C:0.27, G:0.17, T:0.14


Consensus pattern (27 bp):   
AAAATGCCCATGGACATGCAAATGACC

Found at i:2644 original size:35 final size:35

Alignment explanation


    Indices: 2560--2908  Score: 502
    Period size: 35  Copynumber: 9.9  Consensus size: 35

       2550 CTGGATCAAC

                *                                  
       2560 CTTTAAAGATGCTACACCGAGTCATCTG-ATTCCAATGT
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATT-C-A--T

                 *       *  *          *      *
       2598 CTTTGGAGATGCTGCAACGAGTCATCTAAATTCAA
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

                                               
       2633 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

                                      *        
       2668 CTTTGAAGATGCTACACCGAGTCATCCGAATTCAT
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

                                      *       *
       2703 CTTTGAAGATGCTACACCGAGTCATCCGAATTCAA
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

                 *                       *     
       2738 CTTTGGAGATGCTACACCGAGTCATCTGACTTCAT
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

                                      *       *
       2773 CTTTGAAGATGCTACACCGAGTCATCCGAATTCAA
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

                 *        *              *     
       2808 CTTTGGAGATGCTATACCGAGTCATCTGACTTCAT
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

                *                              
       2843 CTTTTAAGATGCTACACCGAGTCATCTGAATTCAT
          1 CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

                                           
       2878 CTTTGAAGATGCTACACCGAGTCATCTGAAT
          1 CTTTGAAGATGCTACACCGAGTCATCTGAAT

       2909 CCCTAAAAAT


Statistics
Matches: 279,  Mismatches: 31, Indels: 5
        0.89            0.10        0.02

Matches are distributed among these distances:
  35  251  0.90
  37    1  0.00
  38   24  0.09
  39    3  0.01

ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30


Consensus pattern (35 bp):   
CTTTGAAGATGCTACACCGAGTCATCTGAATTCAT

Done.