Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019467.1 Corchorus olitorius cultivar O-4 contig19500, 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, 821

Length: 1369
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24


Found at i:403 original size:154 final size:154

Alignment explanation


    Indices: 1--1369  Score: 2028
    Period size: 154  Copynumber: 8.9  Consensus size: 154

                   *         *                     *                         
          1 TCCAAATCAGCTAAAAATTTCACAGTGGAC-TAATCTCAACAAAATGATTATAGTTAGGCCATAA
          1 TCCAAATGAGCTAAAAACTTCACAGTGGACAT-ATCTCACCAAAATGATTATAGTTAGGCCATAA

                                *        *                       *           
         65 ACAATGGAAAGAAAAGCTTTTAGGTTTGCTAAATCGAAGTCGATTCAAAACGGTACTAATGGGCC
         65 ACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGGGCC

             *    *         *        
        130 CCGAAATGCCCAAAATGACAAGTGT
        130 CTGAAAGGCCCAAAATAACAAGTGT

                              *                *  *            *             
        155 TCCAAATGAGCTAAAAAATTTCACAGTGGACATATTTCTCCAAAATGATTACAGTTAGGCCATAA
          1 TCCAAATGAGCT-AAAAACTTCACAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAA

            *                   *                 *  *                       
        220 GCAATGGAAAGAAAAGCTTTTAGGTTTGCCAAATCGAAATCTATTCAAAACGGAACTAATGGGCC
         65 ACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGGGCC

             *               *       
        285 CGGAAAGGCCCAAAATATCAAGTGT
        130 CTGAAAGGCCCAAAATAACAAGTGT

                            **                   *                           
        310 TCCAAATGAGCTAAAATTTTCACAGTGGACATATCTCTCCAAAATGATTATAGTTAGGCCATAAA
          1 TCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA

            *                               *                             *  
        375 TAATGGAAAGAAAAGCTTTGAGGTTTGCCAAACCGAAGTCGATTCAAAACGGAACTAATGGTTCC
         66 CAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGG-GCC

                  *                  
        440 C-GAAACGCCCAAAATAACAAGTGT
        130 CTGAAAGGCCCAAAATAACAAGTGT

                                    *                                        
        464 TCCAAATGAGCTAAAAACTTCACATTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA
          1 TCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA

                   *                               *             *          *
        529 CAATGGATAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTAGATTCAAAACGGATCTAATGGGCCT
         66 CAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGGGCCC

                                    
        594 TGAAAGGCCCAAAATAACAAGTGT
        131 TGAAAGGCCCAAAATAACAAGTGT

                                    *                      *                 
        618 TCCAAATGAGCTAAAAACTTCACATTGGACATATCTCACCAAAATGAATATAGTTAGGCCATAAA
          1 TCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA

                   *                                                         
        683 CAATGGATAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGGGGCC
         66 CAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAAT-GGGCC

                                     
        748 C-GAAAGGCCCAAAATAACAAGTGT
        130 CTGAAAGGCCCAAAATAACAAGTGT

                               *  *                                          
        772 TCCAAATGAGCTAAAAACTCCATAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA
          1 TCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA

                                                 *     *          *          
        837 CAATGGAAAGAAAAGCTTTGAGGTTTGCC-AATACGATGTCGAATCAAAACGGATCTAATGGGCC
         66 CAATGGAAAGAAAAGCTTTGAGGTTTGCCAAAT-CGAAGTCGATTCAAAACGGAACTAATGGGCC

              *       *              
        901 CTAAAAGGCCGAAAATAACAAGTGT
        130 CTGAAAGGCCCAAAATAACAAGTGT

                                    *               *                      * 
        926 TCCAAATGAGCTAAAAACTTCACAATGGACATATCTCACCTAAATGATTATAGTTAGGCCATATA
          1 TCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA

                   *                               *             *          *
        991 CAATGGATAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTAGATTCAAAACGGATCTAATGGGCCT
         66 CAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGGGCCC

                                    
       1056 TGAAAGGCCCAAAATAACAAGTGT
        131 TGAAAGGCCCAAAATAACAAGTGT

                                    *                      *                 
       1080 TCCAAATGAGCTAAAAACTTCACATTGGACATATCTCACCAAAATGAATATAGTTAGGCCATAAA
          1 TCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA

                   *                          *              *  *       *    
       1145 CAATGGATAGAAAAGCTTTGAGGTTTGCCAAATCAAAGTCGATTCAAAATGGTACTAATGAGCCC
         66 CAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGGGCCC

            *  **    *              
       1210 CGATTGGCCTAAAATAACAAGTGT
        131 TGAAAGGCCCAAAATAACAAGTGT

                   *         *                     *                         
       1234 TCCAAATCAGCTAAAAATTTCACAGTGGAC-TAATCTCAACAAAATGATTATAGTTAGGCCATAA
          1 TCCAAATGAGCTAAAAACTTCACAGTGGACAT-ATCTCACCAAAATGATTATAGTTAGGCCATAA

                            *   *      *          *  *           *           
       1298 ACAATGGAAAGAAAAGATTTTAGGTTTTCCAAATCGAAATCTATTCAAAACGGTACTAATGGGCC
         65 ACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGGGCC

             *     
       1363 CGGAAAG
        130 CTGAAAG


Statistics
Matches: 1110,  Mismatches: 96, Indels: 18
        0.91            0.08        0.01

Matches are distributed among these distances:
 153   12  0.01
 154  947  0.85
 155  150  0.14
 156    1  0.00

ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24


Consensus pattern (154 bp):   
TCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATTATAGTTAGGCCATAAA
CAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAACGGAACTAATGGGCCC
TGAAAGGCCCAAAATAACAAGTGT

Done.