Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011443.1 Corchorus olitorius cultivar O-4 contig11476, 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, 934

Length: 1557
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25


Found at i:281 original size:154 final size:153

Alignment explanation


    Indices: 1--975  Score: 1502
    Period size: 154  Copynumber: 6.3  Consensus size: 153

                     *                                 *                     
          1 CACCAAAATAATTATAGTTAGGCCATAAACAATGGAAAGAAAAACATTGAGGTTTACCAAATCGA
          1 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGA

                            *            **       *                          
         66 AGACGAATT-AAAACGTCACTAATGGGCCTTGATAGGCACAAAATAACAAGTGTTCCAAATGAGC
         65 AGACG-ATTCAAAACGACACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGC

                   *   *            *
        130 TAAAAACATCATAGTGGACTAATCA
        129 TAAAAACTTCACAGTGGACTAATCT

                     *       *                         *                     
        155 CACCAAAATAATTATAGGTAGGCCATAAACAATGGAAAGAAAAACATTGAGGTTTACCAAATCGA
          1 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGA

                    *      *            **       *                           
        220 AGACGATTTAAAACGTCACTAATGGGCCTTGATAGGCACAAAATAACAAGTGTTCCAAATGAGCT
         65 AGACGATTCAAAACGACACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCT

                  * *               
        285 AAAAACATGACAGTGGACTAATCT
        130 AAAAACTTCACAGTGGACTAATCT

                                                                    *        
        309 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCTAAATCGAA
          1 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCCAAATCGAA

             *       *                                                       
        374 GGCGATTCAGAACGACACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTA
         66 GACGATTCAAAACGACACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTA

                                   
        439 AAAACTTCACAGTGGACTAATCT
        131 AAAACTTCACAGTGGACTAATCT

               *        *                                                    
        462 CACGAAAATGATAATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCTCAAATCGA
          1 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTC-CAAATCGA

                                   *                              *          
        527 AGACGATTCAAAACGACACTAATAGGCCCCGATAGGCCCAAAATAACAAGTGTTTCAAATGAGCT
         65 AGACGATTCAAAACGACACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCT

                                *   
        592 AAAAACTTCACAGTGGACTAGTCT
        130 AAAAACTTCACAGTGGACTAATCT

                                                           *       *         
        616 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCGA
          1 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA-GGTTTCCAAATCGA

            *              *          * **    *                            * 
        681 TGACGATTCAAAACGTCACTAATGGGTCTTGATACGCCCAAAATAACAAGTGTTCCAAATGAGTT
         65 AGACGATTCAAAACGACACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCT

                                    
        746 AAAAACTTCACAGTGGACTAATCT
        130 AAAAACTTCACAGTGGACTAATCT

               *        * *                                                * 
        770 CACAAAAATGATAAGAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCTCAAATCAA
          1 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTC-CAAATCGA

                                   *                                         
        835 AGACGATTCAAAACGACACTAATTGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCT
         65 AGACGATTCAAAACGACACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCT

                                    
        900 AAAAACTTCACAGTGGACTAATCT
        130 AAAAACTTCACAGTGGACTAATCT

                                *                          *    
        924 CACCAAAATGATTATAGTTATGCCATAAACAATGGAAAGAAAAGCATCGAGG
          1 CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGG

        976 AAAATATTAA


Statistics
Matches: 759,  Mismatches: 58, Indels: 8
        0.92            0.07        0.01

Matches are distributed among these distances:
 153  150  0.20
 154  604  0.80
 155    5  0.01

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


Consensus pattern (153 bp):   
CACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCCAAATCGAA
GACGATTCAAAACGACACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTA
AAAACTTCACAGTGGACTAATCT

Done.