Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011554.1 Corchorus olitorius cultivar O-4 contig11587, 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: 1779
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22


Found at i:382 original size:154 final size:154

Alignment explanation


    Indices: 1--1778  Score: 2830
    Period size: 154  Copynumber: 11.5  Consensus size: 154

                            *             *                                 *
          1 TTAGGCCATAAACAATTGAAAG-AAAGCATCGAGGTTTGCCAAATCGAAGACGATTCGAA-ACGG
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTC-AATACGT

            *         *             *                      *         **      
         64 AACTAAT-GGACCCGA-ACGGACGACAAAATAACAAGTGTTCCAAATTAGACTAAAACTTTCACA
         65 CACTAATGGGCCCCGATA-GG-C-CCAAAATAACAAGTGTTCCAAATGAG-CTAAAAAGTTCACA

                           *             
        127 GTGGACTAATCTCACTAAAATGATTATAG
        126 GTGGACTAATCTCACCAAAATGATTATAG

                                                   *                   *   **
        156 TTAGGCCATAAACAATGGAAAG-AAAGCATTGAGGTTTGACAAATCGAAGACGATTCAAAACGGA
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                       *                                        *       *    
        220 ACTAATGGGCCTCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAATGTTCACAATGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                                    
        285 CTAATCTCACCAAAATGATTATAG
        131 CTAATCTCACCAAAATGATTATAG

                                                                           * 
        309 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGGC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

             *                             *                   * *           
        374 ATTAATGGGCCCCGATAGGCCCAAAATAACAGGTGTTCCAAATGAGCTAAACACTTCACAGTGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                            *       
        439 CTAATCTCACCAAAATAATTATAG
        131 CTAATCTCACCAAAATGATTATAG

                                                             *               
        463 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAATACGTC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                                 *                 *                    *    
        528 ACTAATGGGCCCCGATAGGCCAAAAATAACAAGTGTTCCGAATGAGCTAAAAAGTTCACAATGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                                    
        593 CTAATCTCACCAAAATGATTATAG
        131 CTAATCTCACCAAAATGATTATAG

                                                             *            *  
        617 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAATACATC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                                 *                 *                    *    
        682 ACTAATGGGCCCCGATAGGCCAAAAATAACAAGTGTTCCGAATGAGCTAAAAAGTTCACAATGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                                    
        747 CTAATCTCACCAAAATGATTATAG
        131 CTAATCTCACCAAAATGATTATAG

                                        *                                    
        771 TTAGGCCATAAACAATGGAAAGAAAAGCGTTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                                              *                              
        836 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTATTCCAAATGAGCTAAAAAGTTCACAGTGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                   * *              
        901 CTAATCTAAACAAAATGATTATAG
        131 CTAATCTCACCAAAATGATTATAG

            *                    *             *       *       *             
        925 GTAGGCCATAAACAATGGAAACAAAAGCATTGAGGCTTGCCAATTCGAAGAAGATTCAATACGTC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                         *                             *                     
        990 ACTAATGGGCCCCAATAGG-CCAAAATAACAAGTGTTCCAAATTAGCTAAAAAGTTCACAGTGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                                     
       1054 CTAATCTCACCAAAATTGATTATAG
        131 CTAATCTCACCAAAA-TGATTATAG

                          *                                                  
       1079 TTAGGCCATAAACAGTGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                                              *                              
       1144 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTATTCCAAATGAGCTAAAAAGTTCACAGTGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                   * *              
       1209 CTAATCTAAACAAAATGATTATAG
        131 CTAATCTCACCAAAATGATTATAG

            *     *              *             *       *       *             
       1233 GTAGGCAATAAACAATGGAAACAAAAGCATTGAGGCTTGCCAATTCGAAGAAGATTCAATACGTC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                         *                             *                     
       1298 ACTAATGGGCCCCAATAGGCCCAAAATAACAAGTGTTCCAAATTAGCTAAAAAGTTCACAGTGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                            *       
       1363 CTAATCTCACCAAAATTATTATAG
        131 CTAATCTCACCAAAATGATTATAG

                                        *    *               *    *          
       1387 TTAGGCCATAAACAATGGAAAGAAAAGCCTTGAAGTTTGCCAAATCGAATACGAATCAATACGTC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                                              *   *              *           
       1452 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTATTCAAAATGAGCTAAAAACTTCACAGTGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                 *                  
       1517 CTAATTTCACCAAAATGATTATAG
        131 CTAATCTCACCAAAATGATTATAG

                *              *                          *                  
       1541 TTAGACCATAAACAATGGAGAGAAAAGCATTGAGGTTTGCCAAATCAAAGACGATTCAATACGTC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                     *                        *                              
       1606 ACTAATGGGACCCGATAGGCCCAAAATAACAAGTATTCCAAATGAGCTAAAAAGTTCACAGTGGA
         66 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA

                                    
       1671 CTAATCTCACCAAAATGATTATAG
        131 CTAATCTCACCAAAATGATTATAG

                                                                             
       1695 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC
          1 TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC

                       *       
       1760 ACTAATGGGCCTCGATAGG
         66 ACTAATGGGCCCCGATAGG

       1779 A


Statistics
Matches: 1507,  Mismatches: 110, Indels: 13
        0.92            0.07        0.01

Matches are distributed among these distances:
 153  117  0.08
 154  1260  0.84
 155  121  0.08
 156    8  0.01
 157    1  0.00

ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22


Consensus pattern (154 bp):   
TTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAATACGTC
ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAGTTCACAGTGGA
CTAATCTCACCAAAATGATTATAG

Done.