Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010687.1 Corchorus olitorius cultivar O-4 contig10719, 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, 1000

Length: 2314
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28


Found at i:281 original size:154 final size:154

Alignment explanation


    Indices: 1--701  Score: 1044
    Period size: 154  Copynumber: 4.5  Consensus size: 154

                                                                             
          1 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATC
          1 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATC

                                  *                *    *    *               
         66 TCACCAAAATGATTATAGTTAGCCCATAAACAATGGAAATAAAAACATCAAGGGTTGCCAAATCG
         66 TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCG

             *                       
        131 ATGACGATTCAAAAC-GACACTAAT
        131 AAGACGATTCAAAACGGA-ACTAAT

                                   *                        *               *
        155 GGGCCCCGATAGGCCCAAAATAAAAAGTGTTCCAAATGAGCTAAAAACATCACAGTGGACTAATT
          1 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATC

             *   *                                      *   *    *           
        220 TGACCGAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAACCATTGAGGTTTGCCAAATCG
         66 TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCG

                            **      
        285 AAGACGATTCAAAACGTCACTAAT
        131 AAGACGATTCAAAACGGAACTAAT

                                                                             
        309 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATC
          1 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATC

             * *                *      *           *                         
        374 TTAGCAAAATGATTATAGTTTGGCCATCAACAATGGAAATAAAAGCATCGAGGGTTGCCAAATCG
         66 TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCG

             *          *           
        439 ATGACGATTCAACACGGAACTAAT
        131 AAGACGATTCAAAACGGAACTAAT

               *     * *  *            *            *             *     *    
        463 GGGTCCCGAAATGCACAAAATAACAAGCGTTCCAAATGAGTTAAAAACTTACACGGTGGAGTAAT
          1 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT-CACAGTGGACTAAT

                 *                                           *    *    *     
        528 CTCACTAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCAAAATC
         65 CTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATC

            *            *          *
        593 AAAGACGATTCAAGACGGAACTAAA
        130 GAAGACGATTCAAAACGGAACTAAT

                                                                             
        618 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATC
          1 GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATC

                               
        683 TCACCAAAATGATTATAGT
         66 TCACCAAAATGATTATAGT

        702 GACACGGGAG


Statistics
Matches: 485,  Mismatches: 60, Indels: 4
        0.88            0.11        0.01

Matches are distributed among these distances:
 154  352  0.73
 155  133  0.27

ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21


Consensus pattern (154 bp):   
GGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATC
TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGTTGCCAAATCG
AAGACGATTCAAAACGGAACTAAT

Done.