Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003226.1 Corchorus capsularis cultivar CVL-1 contig03234, 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, 623

Length: 1039
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29


Found at i:852 original size:35 final size:35

Alignment explanation


    Indices: 807--1039  Score: 335
    Period size: 35  Copynumber: 6.7  Consensus size: 35

        797 AAATTTCTTG

                 *     *    *  *               
        807 AAATGAGATCACCTCTAATTGTTGGAAACTACTGA
          1 AAATGCGATCAACTCTGATCGTTGGAAACTACTGA

                                                
        842 AAA-GCTGATCAACTCTGATCGTTGGAAACTACTGA
          1 AAATGC-GATCAACTCTGATCGTTGGAAACTACTGA

                                 *      *      
        877 AAATGCGATCAACTCTGATC-ATGGAAAATACTGA
          1 AAATGCGATCAACTCTGATCGTTGGAAACTACTGA

                 *                      *      
        911 AAATGTGATCAACTCTGATCGTTGGAAAATACTGA
          1 AAATGCGATCAACTCTGATCGTTGGAAACTACTGA

                                               
        946 AAATGCGATCAACTCTGATCGTTGGAAACTACTGA
          1 AAATGCGATCAACTCTGATCGTTGGAAACTACTGA

                                          *    
        981 AAATGCGATCAACTCTGATCGTTGGAAACTTCTGA
          1 AAATGCGATCAACTCTGATCGTTGGAAACTACTGA

                 *   *         *    
       1016 AAATGTGATTAACTCTGATTGTTG
          1 AAATGCGATCAACTCTGATCGTTG


Statistics
Matches: 181,  Mismatches: 14, Indels: 6
        0.90            0.07        0.03

Matches are distributed among these distances:
  34   32  0.18
  35  147  0.81
  36    2  0.01

ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28


Consensus pattern (35 bp):   
AAATGCGATCAACTCTGATCGTTGGAAACTACTGA

Found at i:920 original size:69 final size:70

Alignment explanation


    Indices: 829--1034  Score: 326
    Period size: 69  Copynumber: 3.0  Consensus size: 70

        819 CTCTAATTGT

                                                                             
        829 TGGAAACTACTGAAAA-GCTGATCAACTCTGATCGTTGGAAACTACTGAAAATGCGATCAACTCT
          1 TGGAAACTACTGAAAATG-TGATCAACTCTGATCGTTGGAAACTACTGAAAATGCGATCAACTCT

                  
        893 GATC-A
         65 GATCGA

                  *                                  *                       
        898 TGGAAAATACTGAAAATGTGATCAACTCTGATCGTTGGAAAATACTGAAAATGCGATCAACTCTG
          1 TGGAAACTACTGAAAATGTGATCAACTCTGATCGTTGGAAACTACTGAAAATGCGATCAACTCTG

                *
        963 ATCGT
         66 ATCGA

                              *                        *         *   *       
        968 TGGAAACTACTGAAAATGCGATCAACTCTGATCGTTGGAAACTTCTGAAAATGTGATTAACTCTG
          1 TGGAAACTACTGAAAATGTGATCAACTCTGATCGTTGGAAACTACTGAAAATGCGATCAACTCTG

              
       1033 AT
         66 AT

       1035 TGTTG


Statistics
Matches: 126,  Mismatches: 9, Indels: 3
        0.91            0.07        0.02

Matches are distributed among these distances:
  69   64  0.51
  70   62  0.49

ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27


Consensus pattern (70 bp):   
TGGAAACTACTGAAAATGTGATCAACTCTGATCGTTGGAAACTACTGAAAATGCGATCAACTCTG
ATCGA

Done.