Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008805.1 Corchorus olitorius cultivar O-4 contig08832, 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, 748

Length: 1248
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21


Found at i:363 original size:154 final size:154

Alignment explanation


    Indices: 1--1248  Score: 1860
    Period size: 154  Copynumber: 8.1  Consensus size: 154

                 *                *                                          
          1 CGATTAAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA
          1 CGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA

                           *                                          *      
         66 AACTTCACAGTGGACAAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAATG-AAAG
         66 AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG

                 *     *            
        130 CATTGGGGTTTTCCAAATCGAAGA
        131 CATTGAGGTTTGCCAAATCGAAGA

                 *      **               *                 *                 
        154 CGATTTAAAACGGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
          1 CGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA

                       *                                      *       *      
        219 AACTTCACAGTAGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAGAATGGAATGAAAAG
         66 AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG

                         *          
        284 CATTGAGGTTTGCAAAATCGAAGA
        131 CATTGAGGTTTGCCAAATCGAAGA

                                  *                                          
        308 CGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA
          1 CGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA

             *  *          *                 *                        *      
        373 AGCTCCACAGTGGACAAATCTCACCAAAATGATAATAGTTAGGCCATAAACAATGGAATG-AAAG
         66 AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG

                                    
        437 CATTGAGGTTTGCCAAATCGAAGA
        131 CATTGAGGTTTGCCAAATCGAAGA

             * *          *   *       *      *              *  *             
        461 CAAATCAAAACAG-AACTCATGGGCCTCGATAGTCCCAAAAAAATAACGAGTGTTCCAAATGAGC
          1 CGATTCAAAAC-GTCACTAATGGGCCCCGATAGGCCC---AAAATAACAAGCGTTCCAAATGAGC

                                                   *                         
        525 TAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTACAGTTAGGCCATAAACAATGGAAAGA
         62 TAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGA

                                        
        590 AAAGCATTGAGGTTTGCCAAATCGAAGA
        127 AAAGCATTGAGGTTTGCCAAATCGAAGA

             *            *           *        *            *                
        618 CTATTCAAAAC-TGAACTAATGGGCCTCGATAGGCACAAAATAACAAGTGTTCCAAATGAGCTAA
          1 CGATTCAAAACGT-CACTAATGGGCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAA

              *                   *                       *  *               
        682 AAGCTTCACAGTGGACTAATCTAACCAAAATGATTATAGTTAGGCCGTATACAATGGAAAGAAAA
         65 AAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAA

                                     
        747 GCATTGAGGTTTGCCAAATCGAAGA
        130 GCATTGAGGTTTGCCAAATCGAAGA

                                  * *                                        
        772 CGATTCAAAACGTCACTAATGGTCTCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA
          1 CGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA

                                                        *           *        
        837 AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCGATAAACAATGGTAAGAAAAG
         66 AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG

            *                       
        902 AATTGAGGTTTGCCAAATCGAAGA
        131 CATTGAGGTTTGCCAAATCGAAGA

                            **                       *     *                 
        926 CGATTCAAAACGTCACCGATGGGCCCCGATAGGCCCAAAATGACAAGTGTTCCAAATGAGCTAAA
          1 CGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA

                                                                  *        * 
        991 AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATTGAAAGAAAGG
         66 AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG

                **                *  
       1056 CATCAAAGG-TTGCCAAATCGATGA
        131 CAT-TGAGGTTTGCCAAATCGAAGA

            *                        *                             *         
       1080 TGATTCAAAACGTCACTAATGGGCCTCGATAGGCCCAAAATAACAAGCGTTCCAATTGAGCTAAA
          1 CGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA

                   *                                                         
       1145 AACTTCAGAGTGGACTAATCTCACCAAAATGATTATATGTTAGGCCATAAACAATGGAAAG-AAA
         66 AACTTCACAGTGGACTAATCTCACCAAAATGATTATA-GTTAGGCCATAAACAATGGAAAGAAAA

             *           *           
       1209 GAATTGAGGTTTGTCAAATCGAAGA
        130 GCATTGAGGTTTGCCAAATCGAAGA

                           
       1234 CGATTCAAAACGTCA
          1 CGATTCAAAACGTCA


Statistics
Matches: 988,  Mismatches: 95, Indels: 23
        0.89            0.09        0.02

Matches are distributed among these distances:
 153  173  0.18
 154  651  0.66
 155   26  0.03
 156   81  0.08
 157   57  0.06

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


Consensus pattern (154 bp):   
CGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGCGTTCCAAATGAGCTAAA
AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAG
CATTGAGGTTTGCCAAATCGAAGA

Done.