Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011718.1 Corchorus olitorius cultivar O-4 contig11751, 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, 669

Length: 1115
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22


Found at i:395 original size:154 final size:153

Alignment explanation


    Indices: 1--1115  Score: 1608
    Period size: 154  Copynumber: 7.3  Consensus size: 153

                                *                        *                   
          1 CGGAACTAATGGGCCCCGATGGGCCCAAAATAACAAGTGTTCCAAGTGAGCTAAAAACTTCACAG
          1 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG

                         *                                          *        
         66 TGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCCTTGA-GTT
         66 TGGACTAATCTCATCAAAATGATTATAGTTA-GCCATAAACAATGGAAAGAAAAGCATTGAGGTT

                                    
        130 TGCCAAATCGAAGACGATTCAAAA
        130 TGCCAAATCGAAGACGATTCAAAA

            * **                         *         *                    *   *
        154 TGTCACTAATGGG-CCCGATAGGCCCAAACTAACAAGTGATCCAAATGAGCTAAAAACTTAACAA
          1 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG

                         *    *                     *                        
        218 TGGACTAATCTCACCAAATTGATTATAGTTACGCCATAAATAATGGAAAGAAAAGCATTGAGGTT
         66 TGGACTAATCTCATCAAAATGATTATAGTTA-GCCATAAACAATGGAAAGAAAAGCATTGAGGTT

                    *            *  
        283 TGCCAAATTGAAGACGATTCAGAA
        130 TGCCAAATCGAAGACGATTCAAAA

                                                                  *          
        307 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAG
          1 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG

                                     *                                       
        372 TGGACTAATCTCATCAAAATGATTACAGTTAGTCCATAAACAATGGAAAGAAAAGCATTGAGGTT
         66 TGGACTAATCTCATCAAAATGATTATAGTTAG-CCATAAACAATGGAAAGAAAAGCATTGAGGTT

                           *     *  
        437 TGCCAAATCGAAGACAATTCAGAA
        130 TGCCAAATCGAAGACGATTCAAAA

                                                                  *          
        461 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAG
          1 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG

                                     *                       *             * 
        526 TGGACTAATCTCATCAAAATGATTACAGTTAGTCCATAAACAATGGAAATAAAAGCATTGAGGAT
         66 TGGACTAATCTCATCAAAATGATTATAGTTAG-CCATAAACAATGGAAAGAAAAGCATTGAGGTT

                     *              
        591 TGCCAAATCAAAGACGATTCAAAA
        130 TGCCAAATCGAAGACGATTCAAAA

              **     *            *          *                            *  
        615 CGTCACTAAAGGGCCCCGATAGACCCAAAATAAGAAGTGTTCCAAATGAGCTAAAAACTTCATAG
          1 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG

                *                     *                   *      *   *  *    
        680 TGGAGTAATCTCATCAAAATGATTATTGTTAGGCCATAAACAACT-TAAAGAATAGCTTTAAGGT
         66 TGGACTAATCTCATCAAAATGATTATAGTTA-GCCATAAACAA-TGGAAAGAAAAGCATTGAGGT

                     **              
        744 TTGCCAAATTTAAGACGATTCAAAA
        129 TTGCCAAATCGAAGACGATTCAAAA

                                                                 *      * ** 
        769 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTATAAACTTTATGG
          1 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG

                         *                                  *                
        834 TGGACTAATCTCACCAAAATGATTATAGTTAGTCCATAAACAATGGAAGGAAAAGCATTGAGGTT
         66 TGGACTAATCTCATCAAAATGATTATAGTTAG-CCATAAACAATGGAAAGAAAAGCATTGAGGTT

                                    
        899 TGCCAAATCGAAGACGATTCAAAA
        130 TGCCAAATCGAAGACGATTCAAAA

                       *         *                                        *  
        923 CGGAACTAATGTGCCCCGATAAGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCAAAG
          1 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG

                     *                                    *          *       
        988 TGGACTAATGTCATCAAAATGATTATAGTTAGGCCATAAACAACT-TAAAGAAAAGCTTTGAGGT
         66 TGGACTAATCTCATCAAAATGATTATAGTTA-GCCATAAACAA-TGGAAAGAAAAGCATTGAGGT

                *        *    *      
       1052 TTGCTAAATCGAAAACGACTCAAAA
        129 TTGCCAAATCGAAGACGATTCAAAA

              **            *                      
       1077 CGTCACTAATGGGCCCAGATAGGCCCAAAATAACAAGTG
          1 CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTG


Statistics
Matches: 864,  Mismatches: 89, Indels: 17
        0.89            0.09        0.02

Matches are distributed among these distances:
 152  102  0.12
 153   48  0.06
 154  710  0.82
 155    4  0.00

ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22


Consensus pattern (153 bp):   
CGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG
TGGACTAATCTCATCAAAATGATTATAGTTAGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
GCCAAATCGAAGACGATTCAAAA

Done.