Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010954.1 Corchorus olitorius cultivar O-4 contig10986, 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, 867

Length: 1445
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21


Found at i:281 original size:154 final size:153

Alignment explanation


    Indices: 1--1445  Score: 2145
    Period size: 154  Copynumber: 9.4  Consensus size: 153

                               *    *                                *       
          1 AAATAACAAGTGTTCCAAAAGAGCAAAAAACTTCACAGTGGACTAATCTCACCAAAAGGATTATA
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA

                                 *                  *     *                  
         66 GTTAGGCCATAAACAATGGAACGAAAAGCATTGAGGGTTGTCAAATTGAAGACGATTCAAAACGT
         66 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGT

            *                       
        131 CACTAATGGACCCCGATAGGCCCA
        131 AACTAATGG-CCCCGATAGGCCCA

                          *                  *   *                           
        155 AAATAACAAGTGTTGCAAATGAGCTAAAAACTTTACAATGGACTAATCTCACCAAAATGATTATA
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA

                  *     *        *             **                            
        220 GTTAGGTCATAATCAATGGAACGAAAAGCATTGAGATTTGCCAAATCGAAGACGATTCAAAACGT
         66 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGT

            *                   **  
        285 CACTAATGGGCCCCGATAGGAGCA
        131 AACTAAT-GGCCCCGATAGGCCCA

                              *               *                            * 
        309 AAATAACAAGTGTTCCAACTGAGCTAAAAACTTCTCAGTGGACTAATCTCACCAAAATGATTAGA
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA

            *                                                               *
        374 ATTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGG
         66 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGT

              *   *       *         
        439 AATTAACGAGCCCCTATAGGCCCA
        131 AACTAATG-GCCCCGATAGGCCCA

                                       *                               *     
        463 AAATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTCACCAAAATGGTTATA
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA

                                               *          * *         *     *
        528 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGAGTTGCCAAATTGGAGACGATTCTAAACGG
         66 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGT

                               *    
        593 AACTAATGGGCCCCGATAGACCCA
        131 AACTAAT-GGCCCCGATAGGCCCA

                                *                       **                   
        617 AAATAACAAGTGTTCCAAATTAGCTAAAAACTTCACAGTGGACTCCTCTCAACC-AAATGATTAT
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTC-ACCAAAATGATTAT

                                                                             
        681 AGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACG
         65 AGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACG

             *            *          
        746 TCACTAATGGGCCCTGATAGGCCCA
        130 TAACTAAT-GGCCCCGATAGGCCCA

                           *                   *   *                        *
        771 AAATAACAAGTGTTCTAAATGAGCTAAAAACTTCATAGTCGACTAATCTCACCAAAATGATTATC
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA

                                  *         *   *     *                   *  
        836 GTTAGGCCATAAACAATGGAAATAAAAGCATTAAGGTTTGCCCAATCGAAGACGATTCAAAATGT
         66 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGT

            *                       
        901 CACTAATGGACCCCGATAGGCCCA
        131 AACTAATGG-CCCCGATAGGCCCA

             *                         *                                     
        925 ACATAACAAGTGTTCCAAATGAGCTAAGAACTTCACAGTGGACTAATCTCACCAAAATGATTATA
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA

                  *                            *            *    *   *     **
        990 GTTAGGGCATAAACAATGGAAAGAAAAGCATTGAGAGTTGCCAAATCGGAGACAATTAAAAACAA
         66 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGT

                       *            
       1055 AACTAAATGGCTCCGATAGGCCCA
        131 AACT-AATGGCCCCGATAGGCCCA

                  *                                                *         
       1079 AAATAAAAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAACATGATTATA
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA

                  *    *                       *                 *         **
       1144 GTTAGGGCATATACAATGGAAAGAAAAGCATTGAGCGTTGCCAAATCGAAGACAATTCAAAACAA
         66 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGT

                                    
       1209 AACTAATTGGCCCCGATAGGCCCA
        131 AACTAA-TGGCCCCGATAGGCCCA

                                                                             
       1233 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA

                  *                                                   *     *
       1298 GTTAGGGCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTAAAAAACA
         66 GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATT-CAAAACG

            *                        
       1363 AAACTAATTGGCCCCGATAGGCCCA
        130 TAACTAA-TGGCCCCGATAGGCCCA

                                                                      
       1388 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAAT
          1 AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAAT


Statistics
Matches: 1174,  Mismatches: 108, Indels: 17
        0.90            0.08        0.01

Matches are distributed among these distances:
 153    8  0.01
 154  1066  0.91
 155  100  0.09

ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21


Consensus pattern (153 bp):   
AAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATA
GTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTTGCCAAATCGAAGACGATTCAAAACGT
AACTAATGGCCCCGATAGGCCCA

Done.