Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011586.1 Corchorus olitorius cultivar O-4 contig11619, 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, 777

Length: 1296
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22


Found at i:303 original size:154 final size:154

Alignment explanation


    Indices: 1--1295  Score: 2000
    Period size: 154  Copynumber: 8.4  Consensus size: 154

                                               *                          *  
          1 TTCACAGTGGACTAATCTCACTAAAAATGATTATACTTAGGCCATAAACAATGGAAAGAAAACCA
          1 TTCACAGTGGACTAATCTCACT-AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCA

             **                                   *                          
         66 TTAAGGTTTTGCCAAATCGAAGACGATTCAAAACGTCAGTAATGGGCCCTGATAGGCCCAAAATA
         65 TCGAGG-TTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATA

                       *              
        131 ACAAGTGTTCCTAATGAGCTAAAAA-
        129 ACAAGTGTTCCAAATGAGCTAAAAAC

               *                 **             *                            
        156 TGTTACAGTGGACTAATCTCAAAAAAATGATTATAGGTAGGCCATAAACAATGGAAAGAAAAGCA
          1 T-TCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCA

                                               *            *  *    *        
        221 TCGAGGTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGAAAGGCACAAAATAA
         65 TCGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAA

              *  *                   
        286 CATGTTTTCCAAATGAGCT-AAAAC
        130 CAAGTGTTCCAAATGAGCTAAAAAC

                  *                           *                          *   
        310 TTCACAATGGACTAATCTCACTAAAATGATTATACTTAGGCCATAAACAATGGAAAGAAAACCAT
          1 TTCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCAT

            ** *                                *                            
        375 TAATGTTTGCCAAATCGAAGACGATTCAAAACGTCAGTAATGGGCCCTGATAGGCCCAAAATAAC
         66 CGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAAC

                                   *
        440 AAGTGTTCCAAATGAGCTAAAAAA
        131 AAGTGTTCCAAATGAGCTAAAAAC

               *                  *                                          
        464 TGTTACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCA
          1 T-TCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCA

                              *             * **            *  *    *    *   
        529 TCGAGGTTTGCCAAATCGGAGACGATTCAAAATGGAACTAATGGGCCCCGAAAGGCACAAAGTAA
         65 TCGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAA

                                     
        594 CAAGTGTTCCAAATGAGCTAAAAAC
        130 CAAGTGTTCCAAATGAGCTAAAAAC

                                                                         *   
        619 TTCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAACCAT
          1 TTCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCAT

            ** *                                                             
        684 TAAAGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAAC
         66 CGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAAC

             *                      
        749 AGGTGTTCCAAATGAGCTAAAAAC
        131 AAGTGTTCCAAATGAGCTAAAAAC

                         *                            *                      
        773 TTCACAGTGGACTGATCTCACTAAAATGATTATAGTTAGGCCTTAAACAATGGAAAGAAAAGCAT
          1 TTCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCAT

                 *                           **            *  *    *         
        838 CGAGGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAAAGGCACAAAATAAC
         66 CGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAAC

                                    
        903 AAGTGTTCCAAATGAGCTAAAAAC
        131 AAGTGTTCCAAATGAGCTAAAAAC

                  *           *                                     *        
        927 TTCACAATGGACTAATCTAACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAAAAAAGCAT
          1 TTCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCAT

                                           *                     *           
        992 CGAGGTTTGCCAAATCGAAGACGATTCAAAATGTCACTAATGGGCCCTGATAGACCCAAAATAAC
         66 CGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAAC

                          *         
       1057 AAGTGTTCCAAATGTGCTAAAAAC
        131 AAGTGTTCCAAATGAGCTAAAAAC

              *                  *                                      *    
       1081 TTTACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAACGCAT
          1 TTCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCAT

            *                    *                                           
       1146 TGAGGTTTGCCAAATCGAAGAAGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAAC
         66 CGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAAC

                                    
       1211 AAGTGTTCCAAATGAGCTAAAAAC
        131 AAGTGTTCCAAATGAGCTAAAAAC

                                 *                                       
       1235 TTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATAGGAAAGAAA
          1 TTCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAAT-GGAAAGAAA

       1296 C


Statistics
Matches: 1029,  Mismatches: 106, Indels: 10
        0.90            0.09        0.01

Matches are distributed among these distances:
 153  134  0.13
 154  688  0.67
 155  189  0.18
 156   18  0.02

ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22


Consensus pattern (154 bp):   
TTCACAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCAT
CGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCTGATAGGCCCAAAATAAC
AAGTGTTCCAAATGAGCTAAAAAC

Done.