Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010961.1 Corchorus olitorius cultivar O-4 contig10993, 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, 891

Length: 1485
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21


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

Alignment explanation


    Indices: 1--1482  Score: 2133
    Period size: 154  Copynumber: 9.6  Consensus size: 154

                                           **                    *   *    *  
          1 CAGTGGACTAATCTCAGC-AAAATGATTATACATAGGCCATAAACAATGGAAACAAAGGCATCGA
          1 CAGTGGACTAATCTCA-CTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA

                               *           *             *  *                
         65 GGGTTT-CCAAATCGAAGATGATTCAAAACGGAACTAATGGGCCCCGAAAGGCACAAAATAACAA
         65 -GGTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCTGATAGGCACAAAATAACAA

                                      
        129 GTGTTCCAAATGAGCTAAAAACTTCA
        129 GTGTTCCAAATGAGCTAAAAACTTCA

            *                                                               *
        155 TAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAA
          1 CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAG

                **             *          *                               *  
        220 GTTTTTCAAATCGAAGACGGTTCAAAACGTCACTAATGGGCCCTGATAGGCACAAAATAACAGGT
         66 GTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCTGATAGGCACAAAATAACAAGT

               *                    
        285 GTTACAAATGAGCTAAAAACTTCA
        131 GTTCCAAATGAGCTAAAAACTTCA

                             *                                            *  
        309 CAGTGGACTAATCTCACAAAAATGATTATAGTTAGGCCAT-AACAAATGGAAAGAAAAGCATCGA
          1 CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAAC-AATGGAAAGAAAAGCATTGA

              *                           *             *  *                 
        373 GGGTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAAAGGCACAAAATAACAAG
         65 GGTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCTGATAGGCACAAAATAACAAG

                                     
        438 TGTTCCAAATGAGCTAAAAACTTCA
        130 TGTTCCAAATGAGCTAAAAACTTCA

                    *        *                                  *            
        463 CAGTGGACAAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAAAAAAGCATTGAG
          1 CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAG

                              *           *                                  
        528 GTTTGCCAAATCGAAGACAATTACAAAACGGAACTAATGGG-CCTCGATAGGCACAAAATAACAA
         66 GTTTGCCAAATCGAAGACGATT-CAAAACGTAACTAATGGGCCCT-GATAGGCACAAAATAACAA

                                      
        592 GTGTTCCAAATGAGCTAAAAACTTCA
        129 GTGTTCCAAATGAGCTAAAAACTTCA

                             *                                               
        618 CAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCGATTGG
          1 CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGC-ATT-G

                                     *    **      *                          
        683 AGGTTTGCCAAATCGAAGACGATTCGAAACAAAACTAAAGGGCCCTGATAGGTC-CAAAATAACA
         64 AGGTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCTGATAGG-CACAAAATAACA

                                       
        747 AGTGTTCCAAATGAGCTAAAAACTTCA
        128 AGTGTTCCAAATGAGCTAAAAACTTCA

                *                                                         *  
        774 CAGTCGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTAAG
          1 CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAG

                                          *            *    *  *             
        839 GTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAAGCTCAAAATAACAAGT
         66 GTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCTGATAGGCACAAAATAACAAGT

                                    
        904 GTTCCAAATGAGCTAAAAACTTCA
        131 GTTCCAAATGAGCTAAAAACTTCA

            *                                     *                  *    *  
        928 TAGTGGACTAATCTCAGC-AAAATGATTATAGTTAGGCTATAAACAATGGAAAGAAAGGCATCGA
          1 CAGTGGACTAATCTCA-CTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA

                               *                           * *               
        992 GGGTTTG-CAAATCGAAGATGATTCAAAACAG-AACTAATGGGCCCTTAAAGGCACAAAATAACA
         65 -GGTTTGCCAAATCGAAGACGATTCAAAAC-GTAACTAATGGGCCCTGATAGGCACAAAATAACA

                                       
       1055 AGTGTTCCAAATGAGCTAAAAACTTCA
        128 AGTGTTCCAAATGAGCTAAAAACTTCA

                                                          **                *
       1082 CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAACAGAAAGAAAAGCATTGAA
          1 CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAG

                 *      *  *   *        * *                               *  
       1147 GTTTGTCAAATCAAAAACGGTTCAAAACCTCACTAATGGGCCCTGATAGGCACAAAATAACAGGT
         66 GTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCTGATAGGCACAAAATAACAAGT

                               *    
       1212 GTTCCAAATGAGCT-AAAATTTCA
        131 GTTCCAAATGAGCTAAAAACTTCA

                          *                                          **      
       1235 CAGTGGACTAATCTAACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAAAATTGAG
          1 CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAG

                                 *        *                  *               
       1300 GTTTGCCAAATCGAAGACGATCCAAAACGTCACTAATGGGCCAC-GATAAGCACAAAATAACAAG
         66 GTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCC-CTGATAGGCACAAAATAACAAG

                                     
       1364 TGTTCCAAATGAGCTAAAAACTTCA
        130 TGTTCCAAATGAGCTAAAAACTTCA

                    *                      **                        *    *  
       1389 CAGTGGACAAATCTCAGC-AAAATGATTATACATAGGCCATAAACAATGGAAAGAAAGGCATCGA
          1 CAGTGGACTAATCTCA-CTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA

                               *           
       1453 GGGTTT-CCAAATCGAAGATGATTCAAAACG
         65 -GGTTTGCCAAATCGAAGACGATTCAAAACG

       1483 GAA


Statistics
Matches: 1197,  Mismatches: 110, Indels: 42
        0.89            0.08        0.03

Matches are distributed among these distances:
 153  151  0.13
 154  762  0.64
 155  139  0.12
 156  117  0.10
 157   28  0.02

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


Consensus pattern (154 bp):   
CAGTGGACTAATCTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAG
GTTTGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCTGATAGGCACAAAATAACAAGT
GTTCCAAATGAGCTAAAAACTTCA

Done.