Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011898.1 Corchorus olitorius cultivar O-4 contig11931, 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, 994

Length: 1657
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40


Found at i:286 original size:154 final size:154

Alignment explanation


    Indices: 1--1648  Score: 2536
    Period size: 154  Copynumber: 10.7  Consensus size: 154

                    *                    *            *       *  *           
          1 CTTTCCATCGTTTATGGCCTAACTATAATTATTTTGGTGAGAGTAGTCCATTGAGAAGTTTTTAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

            *                                                                
         66 TTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGAT-TT
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCG-TCTT

                                     
        130 CGATTTGGCAACCCTCAATGCTTTT
        130 CGATTTGGCAACCCTCAATGCTTTT

            *                                                           *    
        155 ATTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTCTTAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

                                *                                            
        220 CTCATTTGGAACACTTGTTAATTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC

                *                   
        285 GATTGGGCAACCCTCAATGCTTTT
        131 GATTTGGCAACCCTCAATGCTTTT

                     *               *                           *  *        
        309 CTTTCCATTATTTATGGCCTAACTAAAATCATTTTGGTGAGATTAGTCCACTGAGATGTTTTTAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

                                                        *   *                
        374 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTACTGATGTTTTGAATCGTCTTC
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC

                            *       
        439 GATTTGGCAACCCTCATTGCTTTT
        131 GATTTGGCAACCCTCAATGCTTTT

                                                      *                      
        463 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGAGTAGTCCACTGTGAAGTTTTTAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

              *  *       *             *                  **            *    
        528 CTAATCTGGAACAATTGTTATTTTGGGTCTATCGGGGCCCATTAGTTCCGTTTTGAATCGCCTTC
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC

                                    
        593 GATTTGGCAACCCTCAATGCTTTT
        131 GATTTGGCAACCCTCAATGCTTTT

                 *  *                                           *         *  
        617 CTTTCTATCGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTATGAAGTTTTAAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

                                                         * **              * 
        682 CTCATTTGGAACACTTGTTATTTTGGGCCTA-CAGGGGCCCATTAATTCCGTTTTGAATCGTCCT
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATC-GGGGCCCATTAGTGACGTTTTGAATCGTCTT

                           *         
        746 CGATTTGGCAACCCTAAATGCTTTT
        130 CGATTTGGCAACCCTCAATGCTTTT

                                    *             *           *      *       
        771 CTTTCCATTGTTTATGGCCTAACTCTAATCATTTTGGTCAGATTAGTCCATTGT-AGTGTTTTTA
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGA-AGTTTTTA

              *                       *      *       *                       
        835 GCGCATTTGGAACACTTGTTATTTTGAGCCTATTGGGGCCCTTTAGTGACGTTTTGAATCGTCTT
         65 GCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTT

                 *     *             
        900 CGATTGGGCAAACCTCAATGCTTTT
        130 CGATTTGGCAACCCTCAATGCTTTT

                    *                    *            *       *  *           
        925 CTTTCCATCGTTTATGGCCTAACTATAATTATTTTGGTGAGAGTAGTCCATTGAGAAGTTTTTAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

            *                                                                
        990 TTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC

                                    
       1055 GATTTGGCAACCCTCAATGCTTTT
        131 GATTTGGCAACCCTCAATGCTTTT

            *                                                           *    
       1079 ATTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTCTTAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

                                *                                            
       1144 CTCATTTGGAACACTTGTTAATTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC

                      **            
       1209 GATTTGGCAAATCTCAATGCTTTT
        131 GATTTGGCAACCCTCAATGCTTTT

             *             *                       *             *           
       1233 CGTTCCATTGTTTATAGCCTAACTATAATCATTTTGGTGGGATTAGTCCACTGAGAAGTTTTTAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

                                                        *   *         *      
       1298 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAATGATGTTTTGAATTGTCTTC
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC

              *                     
       1363 GAGTTGGCAACCCTCAATGCTTTT
        131 GATTTGGCAACCCTCAATGCTTTT

                                                      *                      
       1387 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGAGTAGTCCACTGTGAAGTTTTTAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

              *  *       *             *                   *                *
       1452 CTAATCTGGAACAATTGTTATTTTGGGTCTATCGGGGCCCATTAGT-TCTGTTTTGAATCGTCTC
         66 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGAC-GTTTTGAATCGTCTT

                        *            
       1516 CGATTTGGCAACTCTCAATGCTTTT
        130 CGATTTGGCAACCCTCAATGCTTTT

                    *                                                     *  
       1541 CTTTCCATCGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTAAG
          1 CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

                                                          
       1606 CTCATTTGGAACACTTGTTTATTTT-GG-CTA-CAGGGGCCCATTA
         66 CTCATTTGGAACACTTG-TTATTTTGGGCCTATC-GGGGCCCATTA

       1649 ATTCCGTTT


Statistics
Matches: 1358,  Mismatches: 128, Indels: 17
        0.90            0.09        0.01

Matches are distributed among these distances:
 152    1  0.00
 153   17  0.01
 154  1332  0.98
 155    8  0.01

ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40


Consensus pattern (154 bp):   
CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTC
GATTTGGCAACCCTCAATGCTTTT

Done.