Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007369.1 Corchorus olitorius cultivar O-4 contig07394, 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, 717

Length: 1196
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38


Found at i:338 original size:22 final size:22

Alignment explanation


    Indices: 294--748  Score: 148
    Period size: 22  Copynumber: 20.5  Consensus size: 22

        284 CACATTTTGC

                             *    
        294 AAATTT-GATAACCT-AATATG
          1 AAATTTCGATAACCTCACTATG

                            *     
        314 AAATTTCGATAACCTCCCTATG
          1 AAATTTCGATAACCTCACTATG

               *          *    *  
        336 AAAATTCGATAACCACACTGTG
          1 AAATTTCGATAACCTCACTATG

                  * *     *       
        358 AAATTTTGGTAACCACACTATG
          1 AAATTTCGATAACCTCACTATG

                        *    * *  
        380 AAATTTCGATAATCTCAGTGTG
          1 AAATTTCGATAACCTCACTATG

                  *     *         *
        402 AAATTTTGATAATCTGC-CTATA
          1 AAATTTCGATAACCT-CACTATG

                  **    * *         
        424 AAATTTTAATAATCACACTAAAT-
          1 AAATTTCGATAACCTCACT--ATG

               *    *     *       
        447 AAAATT-GGTAACCGCACTATG
          1 AAATTTCGATAACCTCACTATG

                   *       *   *  *
        468 AAAGTTTTGATAACCACACCATT
          1 AAA-TTTCGATAACCTCACTATG

                                    *   
        491 AAATTTCGATAACCTCCCTACGAGAATG
          1 AAATTTCGATAACCT--C-AC---TATG

                 *      *    *     
        519 AAACTGT-GATATCCTCTCTATG
          1 AAA-TTTCGATAACCTCACTATG

            * *             * *  *
        541 TATTTTCGATAACCTCTCCATA
          1 AAATTTCGATAACCTCACTATG

                             *    *
        563 AAATTTTC-ATAACCTCCCTATA
          1 AAA-TTTCGATAACCTCACTATG

                  * *       *   * 
        585 AAATTTTGTTAACCTCTCTAGG
          1 AAATTTCGATAACCTCACTATG

                  *       *       
        607 AAATTTTGATAA--GCAC----
          1 AAATTTCGATAACCTCACTATG

                    *                 
        623 AAATTTCGGTAACCTCACTCCCTATG
          1 AAATTTCGATAACCTCA----CTATG

                  * *       **    
        649 AAATTTTGGTAACCTCTGTATG
          1 AAATTTCGATAACCTCACTATG

                  *                
        671 AAATTTTGATAA-CTACACTATG
          1 AAATTTCGATAACCT-CACTATG

              *   *                
        693 AAGTTTTGATAACCTCTA-TATG
          1 AAATTTCGATAACCTC-ACTATG

                  * *     *     * 
        715 AAATTTTGGTAACCACACTACG
          1 AAATTTCGATAACCTCACTATG

                  *     
        737 AAATTTTGATAA
          1 AAATTTCGATAA

        749 TCGTTCTATG


Statistics
Matches: 329,  Mismatches: 73, Indels: 64
        0.71            0.16        0.14

Matches are distributed among these distances:
  16   10  0.03
  18    2  0.01
  20   10  0.03
  21   20  0.06
  22  224  0.68
  23   27  0.08
  24    3  0.01
  25    3  0.01
  26   16  0.05
  28   12  0.04
  29    2  0.01

ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34


Consensus pattern (22 bp):   
AAATTTCGATAACCTCACTATG

Done.