Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011006.1 Corchorus olitorius cultivar O-4 contig11038, 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: 3685
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28


Found at i:1556 original size:154 final size:154

Alignment explanation


    Indices: 1225--2541  Score: 2005
    Period size: 154  Copynumber: 8.6  Consensus size: 154

       1215 CGCATCAGGA

                         *                                *                  
       1225 ACTAATGGGCCCCTATAGGCCCAAAATAACAAGTGTTCCAAATGAGTTAAAAACTTCACAGTGGA
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA

                                  *                              *           
       1290 CTAATCTCACCAAAATGATTATTGTTAGGCCAT----AA---AAAGAAAAGCAATGAGGGTTGCC
         66 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC

                                    
       1348 AAATCGAAGACGATTCAAAACGTC
        131 AAATCGAAGACGATTCAAAACGTC

                     *  *      *                  *             *            
       1372 ACTAATGGGTCCTGATAGGACCAAAATAACAAGTGTTCTAAATGAGCTAAAACCTTCACAGTGGA
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA

                                                                      **     
       1437 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGATTTGCC
         66 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC

                *                   
       1502 AAATTGAAGACGATTCAAAACGTC
        131 AAATCGAAGACGATTCAAAACGTC

                              *                                     **       
       1526 ACTAATGGGCCCCGATAGACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTTTCAGTGGA
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA

                             *      *                    *           ***     
       1591 CTAATCTCACCAAAATGGTTATAGATAGGCCATAAACAATGGAAATAAAAGCATTGAAATTTGCC
         66 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC

                *                   
       1656 AAATTGAAGACGATTCAAAACGTC
        131 AAATCGAAGACGATTCAAAACGTC

                                   *                                         
       1680 ACTAATGGGCCCCGATAGGCCCATAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA

            *                                 *                *             
       1745 GTAATCTCACCAAAATGATTATAGTTAGGCCATAGACAATGGAAAG-AAAGTATTGAGGGTTGCC
         66 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC

                 *                  
       1809 AAATCAAAGACGATTCAAAACGTC
        131 AAATCGAAGACGATTCAAAACGTC

                                *                                            
       1833 ACTAATGGGCCCCGATA-GCTCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA

                                                                             
       1897 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAA-CA--GAGGGTTGCC
         66 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC

                                  **
       1959 AAATCGAAGACGATTCAAAACGGA
        131 AAATCGAAGACGATTCAAAACGTC

              *    *            *        *             *                     
       1983 ACAAATGCGCCCCGATAGGCTCAAAATAAAAAGTGTTCCAAATTAGCTAAAAACTTCACAGTGGA
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA

                 *          *                                                
       2048 CTAATGTCACCAAAATTATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC
         66 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC

                                  **
       2113 AAATCGAAGACGATTCAAAACGGA
        131 AAATCGAAGACGATTCAAAACGTC

              *         *       *  *                                         
       2137 ACAAATGGGCCCTGAT-GGCTCATAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA

                                                                       *     
       2201 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCC
         66 CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC

            *                       
       2266 CAATCGAAGACGATTCAAAACGTC
        131 AAATCGAAGACGATTCAAAACGTC

                 * *            *                       *     *              
       2290 ACTAAAGCGCCCCGATAGGCTCAAAATAACAAGTGTTCCAAATGCGCTAATAACATT-ACAGTGG
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAC-TTCACAGTGG

                    *                                    *                   
       2354 ACTAATCTGACCAAAATGATTATAGTTAGGCCATAAACAATGGAATGAAAAGCATTGAGGGTTGC
         65 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGC

                                   **
       2419 CAAATCGAAGACGATTCAAAACGGA
        130 CAAATCGAAGACGATTCAAAACGTC

                         *                                              *    
       2444 ACTAATGGGCCCCTATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAATGGA
          1 ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA

             *                     *         
       2509 CAAATCTCACCAAAATGATTATAATTAGGCCAT
         66 CTAATCTCACCAAAATGATTATAGTTAGGCCAT

       2542 GAAAAGAAAA


Statistics
Matches: 1068,  Mismatches: 87, Indels: 23
        0.91            0.07        0.02

Matches are distributed among these distances:
 147   90  0.08
 150   46  0.04
 151   95  0.09
 152   92  0.09
 153  198  0.19
 154  545  0.51
 155    2  0.00

ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22


Consensus pattern (154 bp):   
ACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGA
CTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCC
AAATCGAAGACGATTCAAAACGTC
Done.