Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015591.1 Corchorus olitorius cultivar O-4 contig15624, 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: 10664
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:7982 original size:30 final size:29

Alignment explanation


    Indices: 7882--8100  Score: 248
    Period size: 28  Copynumber: 7.6  Consensus size: 29

       7872 AGTGCACTCG

                    *     *     *        
       7882 AAATGACCGAAAT-ACCCCTAGATGTGCA
          1 AAATGACCAAAATGCCCCCTGGATGTGCA

                            *       *    
       7910 AAATGACCAAAATG-CTCCTGGATATGCA
          1 AAATGACCAAAATGCCCCCTGGATGTGCA

             *     *                     
       7938 AGATGACTAAAATGCCCCCTGGATGTGCA
          1 AAATGACCAAAATGCCCCCTGGATGTGCA

                 *                        
       7967 AAAGTAACCAAAATGCCCCCTGGATGTGCA
          1 AAA-TGACCAAAATGCCCCCTGGATGTGCA

                          *              
       7997 AAATGACCAAAATGTCCCCTGGATGTGCA
          1 AAATGACCAAAATGCCCCCTGGATGTGCA

                 *                   *  * 
       8026 AAAGTAACCAAAATG-CCCCTGGATATGTA
          1 AAA-TGACCAAAATGCCCCCTGGATGTGCA

                              *   * *    
       8055 AAATGACCAAAATG-CCCTTGGTTATGCA
          1 AAATGACCAAAATGCCCCCTGGATGTGCA

                  *           
       8083 AAATGATCAAAATGCCCC
          1 AAATGACCAAAATGCCCC

       8101 TTTAAGTGAC


Statistics
Matches: 165,  Mismatches: 21, Indels: 9
        0.85            0.11        0.05

Matches are distributed among these distances:
  28   69  0.42
  29   59  0.36
  30   37  0.22

ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20


Consensus pattern (29 bp):   
AAATGACCAAAATGCCCCCTGGATGTGCA

Found at i:8003 original size:59 final size:58

Alignment explanation


    Indices: 7882--8101  Score: 268
    Period size: 59  Copynumber: 3.8  Consensus size: 58

       7872 AGTGCACTCG

                    *     *     *             *          *            
       7882 AAATGACCGAAAT-ACCCCTAGATGTGCAAAA-TGACCAAAATGCTCCTGGATATGCA
          1 AAATGACCAAAATGCCCCCTGGATGTGCAAAAGTAACCAAAATGCCCCTGGATATGCA

             *     *                                              *    
       7938 AGATGACTAAAATGCCCCCTGGATGTGCAAAAGTAACCAAAATGCCCCCTGGATGTGCA
          1 AAATGACCAAAATGCCCCCTGGATGTGCAAAAGTAACCAAAATG-CCCCTGGATATGCA

                          *                                         * 
       7997 AAATGACCAAAATGTCCCCTGGATGTGCAAAAGTAACCAAAATGCCCCTGGATATGTA
          1 AAATGACCAAAATGCCCCCTGGATGTGCAAAAGTAACCAAAATGCCCCTGGATATGCA

                              *   * *         * *            
       8055 AAATGACCAAAATG-CCCTTGGTTATGCAAAA-TGATCAAAATGCCCCT
          1 AAATGACCAAAATGCCCCCTGGATGTGCAAAAGTAACCAAAATGCCCCT

       8102 TTAAGTGACC


Statistics
Matches: 143,  Mismatches: 18, Indels: 6
        0.86            0.11        0.04

Matches are distributed among these distances:
  56   24  0.17
  57   30  0.21
  58   36  0.25
  59   53  0.37

ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20


Consensus pattern (58 bp):   
AAATGACCAAAATGCCCCCTGGATGTGCAAAAGTAACCAAAATGCCCCTGGATATGCA
Done.