Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011742.1 Corchorus olitorius cultivar O-4 contig11775, 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: 3543
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39


Found at i:315 original size:154 final size:154

Alignment explanation


    Indices: 4--3002  Score: 4499
    Period size: 154  Copynumber: 19.5  Consensus size: 154

          1 TCA

                        *                                                    
          4 TTTTGAATCGTCATCGATTT-G-AGAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA
          1 TTTTGAATCGTCTTCGATTTGGCA-AACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

                                  *            *               *             
         67 TAATCATTTTGGTGAGATTAGTGCACTGTGAAGTTCTTAGCTCATTTGGAAAACTTGTTATTTTG
         65 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

                    *                
        132 GGCCTATCAAGGCCCATTAGTGACG
        130 GGCCTATCGAGGCCCATTAGTGACG

                       **    *       *   **                                  
        157 TTTTGAATCGTAATCGACTTGGCAACCCTTGATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                    *           **    *          *                         * 
        222 AATCATTTCGGTGAGATTAGAACACTATGAAGTTTTTGGCTCATTTGGAACACTTGTTATTTTCG
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                                    
        287 GCCTATCGAGG-CCATTAGTGACG
        131 GCCTATCGAGGCCCATTAGTGACG

                                              *                         *    
        310 TTTTTGAATCGTCTTCGATTTGGCAAACCTCAATCCTTTTCTTTCCATTGTTTATGGCCTGACTA
          1 -TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

                *                                                            
        375 TAATTATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG
         65 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

               *         *           
        440 GGCTTATCGAGGCTCATTAGTGACG
        130 GGCCTATCGAGGCCCATTAGTGACG

                *               *          *    *                            
        465 TTTTAAATCGTCTTCGATTTAGC-AACCTTCGATGCCTTTCTTT-CATTTGTTTATGGCCTAACT
          1 TTTTGAATCGTCTTCGATTTGGCAAACC-TCAATGCTTTTCTTTCCA-TTGTTTATGGCCTAACT

                        *   *           *                 *        *         
        528 ATAATCATTTTGCTGACATTAGTCCACTATGAAGTTTTTAGCTCATATGGAACACATGTTATTTT
         64 ATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT

               *      *  *            
        593 GGGGCTATCGGGGACCATTAGTGACG
        129 GGGCCTATCGAGGCCCATTAGTGACG

                                                                       *     
        619 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTGACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                                                                   *         
        684 AATTCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTCGTT-TTTTG
         66 AA-TCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

                          *            
        748 GGCCTAGTCG-GAGACCA-TAGTGACG
        130 GGCCTA-TCGAG-GCCCATTAGTGACG

                                                           *  *  * *         
        773 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATCGTGTACGTCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                     *     *                                      *    *     
        838 AATCATTTTAGTGAGGTTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTCGTTACTTTGG
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                        *            
        903 GCCTATCG-GAGACCATTAGTGACG
        131 GCCTATCGAG-GCCCATTAGTGACG

                                       *      *            *  *  *       *   
        927 TTTTGAATCGTCTTCGATTTGGCAAACTTCAATGATTTTCTTTCCATCGTGTACGGCCTAATTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

             *             *             *                                   
        992 ATTCATTTTGGTGAGGTTAGTCCACTGTGCAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                    *  *            
       1057 GCCTATCGGGGACCATTAGTGACG
        131 GCCTATCGAGGCCCATTAGTGACG

                                                                       *     
       1081 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTGACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                                                                             
       1146 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

              *                     
       1211 GCTTATCGAGGCCCATTAGTGACG
        131 GCCTATCGAGGCCCATTAGTGACG

                                           *    *        *                   
       1235 TTTTGAATCGTCTTCGATTTGGC-AACCTTCGATGCCTTTCTTTCAATTGTTTATGGCCTAACTA
          1 TTTTGAATCGTCTTCGATTTGGCAAACC-TCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

                                                         *         *         
       1299 TAATCATTTTGGTGAGATTAGTCCACTGTGAAG-TTTTAGCTCATATGGAACACTCGTTATTTTG
         65 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

                     *  *            
       1363 GGCCTATCGGGGACCATTAGTGACG
        130 GGCCTATCGAGGCCCATTAGTGACG

                                              *                     *        
       1388 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATTCCTTTTCTTTCCATTGTTTATGTCCTAACTA
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAA-TGCTTTTCTTTCCATTGTTTATGGCCTAACTA

             *     *                                   *                     
       1453 TTATCATATTGGTGATG-TTAGTCCACTGTGAAGTTTTTAGCTTATTTGGAACACTTGTTATTTT
         65 TAATCATTTTGGTGA-GATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT

               *                   **  
       1517 GTGTCCTATCGAGGCCCATTAGTTTCG
        129 G-GGCCTATCGAGGCCCATTAGTGACG

                    **     *                                                 
       1544 TTTTGAATTATCTTCTATTTGGACAAACCTCAATGTCTTTTCTTTCCATTGTTTATGGCCTAACT
          1 TTTTGAATCGTCTTCGATTTGG-CAAACCTCAATG-CTTTTCTTTCCATTGTTTATGGCCTAACT

                                                        *              *     
       1609 ATAATCTATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTTATTTGGAACACTTGCTATTT
         64 ATAATC-ATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTT

             ***                   **  
       1674 TCTTCCTATCGAGGCCCATTAGTTCCG
        128 TGGGCCTATCGAGGCCCATTAGTGACG

                    **     *                                                 
       1701 TTTTGAATTATCTTCAATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                                                     *                      *
       1766 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTTATTTGGAACACTTGTTATTTTGT
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                           *    **  
       1831 GCCTATCGAGGCCCACTAGTTTCG
        131 GCCTATCGAGGCCCATTAGTGACG

                    **     *                                                 
       1855 TTTTGAATTATCTTCTATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                                                                           **
       1920 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTCT
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                                     
       1985 GCCTATCGAGGCCCATTAGTTG-CG
        131 GCCTATCGAGGCCCATTAG-TGACG

                *   **                              *                        
       2009 TTTTAAATTATCTTCGATTTGGCAAACCTCAATGCTTTCTTTTTCCATTGTTTATGGCCTAACTA
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTT-TCTTTCCATTGTTTATGGCCTAACTA

                       *           *                                         
       2074 TAATCATTTTGATGAGATTAGTCGACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG
         65 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

                 *           *       
       2139 GGCCTTTCG-GGCCCATCAGTGACG
        130 GGCCTATCGAGGCCCATTAGTGACG

                                             *      *            *           
       2163 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATTCTTTTCATTCCATTGTTTACGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                *                                                *           
       2228 AATCTTTTTGGTGAGATTAGTCCACTGTGAA-TTTTTAGCTCATTTGGAACACATGTTATTTTGG
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                    *  *            
       2292 GCCTATCGGGGACCATTAGTGACG
        131 GCCTATCGAGGCCCATTAGTGACG

                                           *                  *  *           
       2316 TTTTGAATCGTCTTCGATTTGGCAAACCTCAGTGCTTTTCTTTCCATTGTGTACGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                                *                                            
       2381 AATCATTTTGGTGAGATTAATTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG
         66 AATCATTTTGGTGAGATT-AGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

                 *                **  
       2446 GGCCTTTCG-GGCCCCATTAGTTCCG
        130 GGCCTATCGAGG-CCCATTAGTGACG

                *                 *                                          
       2471 TTTTAAATCGTCTTCGATTTGGAAAACCTCAAT-CTTTTCTTTCCATTGTTTATGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                                       *                                    *
       2535 AATCATTTTGGTGAGATTAGTCCACTGCGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGT
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                                    
       2600 GCCTATCGAGGCCCATTAGTGACG
        131 GCCTATCGAGGCCCATTAGTGACG

                                                                             
       2624 TTTTGAATCGTCTTCGATTTGGC-AACCTCAATGCTTTT-TTTCCATTGTTTATGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                                                                             
       2687 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                    *  *            
       2752 GCCTATCGGGGACCATTAGTGACG
        131 GCCTATCGAGGCCCATTAGTGACG

                                                                             
       2776 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                             *    *            *                             
       2841 AATCATTTTGGTGAGATCAGTCAACTGTGAAGTTTCTAGCTCATTTGGAACACTTGTTATTTTGG
         66 AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG

                    *               
       2906 GCCTATCGGGGCCCATTAGTGACG
        131 GCCTATCGAGGCCCATTAGTGACG

               *     *                              *                        
       2930 TTTCGAATCATCTTCGATTTGGC-AACCTCAATGCTTTTCGTTCCATTGTTTATGGCCTAACTAT
          1 TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT

                     
       2994 AATCATTTT
         66 AATCATTTT

       3003 TGATACGAAT


Statistics
Matches: 2617,  Mismatches: 194, Indels: 70
        0.91            0.07        0.02

Matches are distributed among these distances:
 152  181  0.07
 153  478  0.18
 154  1448  0.55
 155  315  0.12
 156   52  0.02
 157   88  0.03
 158   55  0.02

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


Consensus pattern (154 bp):   
TTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTAT
AATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGG
GCCTATCGAGGCCCATTAGTGACG

Done.