Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011659.1 Corchorus olitorius cultivar O-4 contig11692, 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, 766

Length: 1278
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21


Found at i:287 original size:154 final size:154

Alignment explanation


    Indices: 3--1278  Score: 2068
    Period size: 154  Copynumber: 8.3  Consensus size: 154

          1 AG

                                             *                  *            
          3 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTGAAAACGGAACTAATGGGCTCCGATAGGCCCA
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA

                                    *                      *            *    
         68 AAATAACAAGTTTTCCAAATGAGCAAAAAACTTCACAATCGACTAATGTCACCAAAATGAATATA
         66 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA

                             *      
        133 GTTAGGCCATAAACAATTGAAAGA
        131 GTTAGGCCATAAACAATGGAAAGA

                                                    *               *        
        157 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGAAACTAATGGGCCCCGGTAGGCCCA
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA

                                                    *                        
        222 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATA
         66 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA

                     *              
        287 GTTAGGCCAAAAACAATGGAAAGA
        131 GTTAGGCCATAAACAATGGAAAGA

                            *                                                
        311 AAAGCATTGAGGTTTGACAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA

            *          *                   *     * *         *               
        376 GAATAACAAGTGTTCCAAATGAGCTAAAAACATCACAGTGGACTAATCTGACCAAAATGATTATA
         66 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA

                             *      
        441 GTTAGGCCATAAACAATTGAAAGA
        131 GTTAGGCCATAAACAATGGAAAGA

                                           * *      *                     *  
        465 AAAGCATTGAGGTTTGCCAAATCGAAGACGACTGAAAACGAAACTAATGGGCCCCGATAGGCTCA
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA

                                                               *      * *    
        530 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCAACAAAATTAATATA
         66 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA

                   *       * *      
        595 GTTAGGCTATAAACAGTTGAAAGA
        131 GTTAGGCCATAAACAATGGAAAGA

                                       *            *               *        
        619 AAAGCATTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGAAACTAATGGGCCCCGGTAGGCCCA
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA

                                     *              *                        
        684 AAATAACAAGTTTTCCAAATGAGCTTAAAACTTCACAATCAACTAATCTCACCAAAATGATTATA
         66 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA

                                    
        749 GTTAGGCCATAAACAATGGAAAGA
        131 GTTAGGCCATAAACAATGGAAAGA

                      *                                 *                    
        773 AAAGCATTGACGTTTGCCAAATCGAAGACGATTCAAAACGGAACAAATGGGCCCCGATAGGCCCA
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA

            *       *  *        *     *          * * *       *               
        838 GAATAACAGGTGTTCCAAATCAGCTATAAACTTCACAGTGGTCTAATCTGACCAAAATGATTATA
         66 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA

                                    
        903 GTTAGGCCATAAACAATGGAAAGA
        131 GTTAGGCCATAAACAATGGAAAGA

                       *                **                                   
        927 AAAGCATTGAGCTTTGCCAAATCGAAGAATATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA

                       *                                                     
        992 AAATAACAAGTCTTCCAAATGAGCTAAAAACTTCACAATCGACTAAT-TCACCAAAATGATTATA
         66 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA

                             *      
       1056 GTTAGGCCATAAACAATTGAAAGA
        131 GTTAGGCCATAAACAATGGAAAGA

                                                                           * 
       1080 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCAA
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA

                       *                         *               *           
       1145 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTCGACTAATCTCACCTAAATGATTATA
         66 AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA

                                    
       1210 GTTAGGCCATAAACAATGGAAAGA
        131 GTTAGGCCATAAACAATGGAAAGA

                                                         
       1234 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACT
          1 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACT


Statistics
Matches: 1031,  Mismatches: 90, Indels: 2
        0.92            0.08        0.00

Matches are distributed among these distances:
 153  145  0.14
 154  886  0.86

ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21


Consensus pattern (154 bp):   
AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA
AAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATA
GTTAGGCCATAAACAATGGAAAGA

Done.