Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011702.1 Corchorus olitorius cultivar O-4 contig11735, 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, 853

Length: 1423
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21


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

Alignment explanation


    Indices: 1--1420  Score: 2295
    Period size: 154  Copynumber: 9.2  Consensus size: 154

                            *   **               *     *                     
          1 ATCGAAGACGATTCAAGACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGTTCCAAAT
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT

                                                                          *  
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATCGA
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA

                                    
        131 AAGAAAAGCATTGAGGTTTGCCAA
        131 AAGAAAAGCATTGAGGTTTGCCAA

                                                             *               
        155 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATTACAAGTGTTCCAAAT
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT

               *                         * *                   *             
        220 GAGTTAAAAACTTCACAGTGGACTAATCTTAGCAAAATTG-TTATAGTTAGCCCATAAACAATGG
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAA-TGATTATAGTTAGGCCATAAACAATGG

                        *    *       
        284 AAAGAAAAGCATCGAGGGTTGCCAA
        130 AAAGAAAAGCATTGAGGTTTGCCAA

                                **      *        *     *                     
        309 ATCGAAGACGATTCAAAACGGAACTAATTGGCCCCGAAAGGCCTAAAATAACAAGTGTTCCAAAT
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT

                                                                             
        374 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA

              *                     
        439 AACAAAAGCATTGAGGTTTGCCAA
        131 AAGAAAAGCATTGAGGTTTGCCAA

                                              *                   *          
        463 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAAATAACAGGTGTTCCAAA
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCC-AAAATAACAAGTGTTCCAAA

               *                     *      **            *                  
        528 TGATCTAAAAACTTCACAGTGGACTGATCTCAGTAAAATGATTATACTTAGGCCATAAACAATGG
         65 TGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG

                                     
        593 AAAGAAAAGCATTGAGGTTTGCCAA
        130 AAAGAAAAGCATTGAGGTTTGCCAA

                                   *          *                              
        618 ATCGAAGACGATTCAAAACGTCAGTAATGGGCCCTGATAGGCCCAAAATAACAAGTGTTCCAAAT
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT

                         *  *    *                                           
        683 GAGCTAAAAACTTTACTGTGGGCTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA

                   *    *           
        748 AAGAAAACCATTAAGGTTTGCCAA
        131 AAGAAAAGCATTGAGGTTTGCCAA

                                              *                  *           
        772 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAACAGGTGTTCCAAAT
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT

                                    *       *            *                   
        837 GAGCTAAAAACTTCACAGTGGACTGATCTCACTAAAATGATTATACTTAGGCCATAAACAATGGA
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA

                                    
        902 AAGAAAAGCATTGAGGTTTGCCAA
        131 AAGAAAAGCATTGAGGTTTGCCAA

                                              *                              
        926 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAACAAGTGTTCCAAAT
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT

                         *                                                   
        991 GAGCTAAAAACTTTACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA

                            *       
       1056 AAGAAAAGCATTGAGGGTTGCCAA
        131 AAGAAAAGCATTGAGGTTTGCCAA

                                                                             
       1080 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT

                                    *       *                                
       1145 GAGCTAAAAACTTCACAGTGGACTGATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGA
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA

                  *         *       
       1210 AAGAAACGCATTGAGGGTTGCCAA
        131 AAGAAAAGCATTGAGGTTTGCCAA

                      *         **               *    *            *         
       1234 ATCGAAGACGTTTCAAAACGGAACTAATGGGCCCCGAAAGGCACAAAATAACAAGCGTTCCAAAT
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT

                      *  *              *                 *                  
       1299 GAGCTAAAAAGTTTACAGTGGACTAATCCCACCAAAATGATTATAGGTAGGCCATAAACAATGGA
         66 GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA

            *          *            
       1364 TAGAAAAGCATCGAGGTTTGCCAA
        131 AAGAAAAGCATTGAGGTTTGCCAA

                                              
       1388 ATCGAAGACGATTCAAAACGT-ACTAATGGGCCC
          1 ATCGAAGACGATTCAAAACGTCACTAATGGGCCC

       1421 TGA


Statistics
Matches: 1173,  Mismatches: 90, Indels: 7
        0.92            0.07        0.01

Matches are distributed among these distances:
 153   14  0.01
 154  1011  0.86
 155  148  0.13

ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21


Consensus pattern (154 bp):   
ATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAAT
GAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGA
AAGAAAAGCATTGAGGTTTGCCAA

Done.