Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012747.1 Corchorus olitorius cultivar O-4 contig12780, 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, 750

Length: 1251
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23


Found at i:521 original size:154 final size:154

Alignment explanation


    Indices: 233--1251  Score: 1707
    Period size: 154  Copynumber: 6.6  Consensus size: 154

        223 ATTCGTATCA

                   *                                              *  *       
        233 CCCGATATGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGGCTTATCTCAC
          1 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC

                *                        *                   *               
        298 CAAATTGATTATAGTTAGGCCATAAACAAAGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGA
         66 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA

                      *          *  
        363 CGATTCAAAATGTCACTAAAGAGC
        131 CGATTCAAAACGTCACTAAAGGGC

              *                         *   *                                
        387 CCGGATAGGCCCAAAATAACAAGTGTTCTAAAGGAGCTAAAAACTTCACAGTGGACTAATCTCAC
          1 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC

                     *  *            *                                       
        452 CAAAATGATAATTGTTAGGCCATAATCAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA
         66 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA

                     *   *      *    
        517 CGATTCAAATCGAACACTAATGGGC
        131 CGATTCAAAACG-TCACTAAAGGGC

                 *                     *                                     
        542 CCCGAAAGGCCCAAAATAACAAGTGTTACAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC
          1 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC

                                                                             
        607 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA
         66 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA

                               *    
        672 CGATTCAAAACGTCACTAATGGGC
        131 CGATTCAAAACGTCACTAAAGGGC

                   *                               *                         
        696 CCCGATATGCCCAAAATAACAAGTGTTCCAAATGAGCTATAAACTTCACAGTGGACTAATCTCAC
          1 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC

                                     *                      **               
        761 CAAAATGATTATAGTTAGGCCATAATCAATGGAAAGAAAAGCATTGAGCTTTGCCAAATCGAAGA
         66 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA

                                    
        826 CGATTCAAAACGTCACTAAAGGGC
        131 CGATTCAAAACGTCACTAAAGGGC

                                                                             
        850 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC
          1 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC

                                                                             
        915 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA
         66 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA

                               *    
        980 CGATTCAAAACGTCACTAATGGGC
        131 CGATTCAAAACGTCACTAAAGGGC

                                                *           *                
       1004 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGATAAAAACTTCATAGTGGACTAATCTCAC
          1 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC

                                                             *               
       1069 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGA
         66 CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA

                                   *
       1134 CGATTCAAAACGTCACTAAA-GGA
        131 CGATTCAAAACGTCACTAAAGGGC

                                             *                *              
       1157 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATAAGCTAAAAACTTCACACTGGACTAATCTCAC
          1 CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC

                  * *                *    
       1222 CAAAATTAGTATAGTTAGGCCATAATCAAT
         66 CAAAATGATTATAGTTAGGCCATAAACAAT


Statistics
Matches: 811,  Mismatches: 53, Indels: 3
        0.94            0.06        0.00

Matches are distributed among these distances:
 153   90  0.11
 154  579  0.71
 155  142  0.18

ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21


Consensus pattern (154 bp):   
CCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCAC
CAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGA
CGATTCAAAACGTCACTAAAGGGC

Done.