Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011926.1 Corchorus olitorius cultivar O-4 contig11959, 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, 614

Length: 1024
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41


Found at i:288 original size:154 final size:154

Alignment explanation


    Indices: 5--1024  Score: 1447
    Period size: 154  Copynumber: 6.6  Consensus size: 154

          1 GGTC

                       *  *   *                   *              *           
          5 AGATTAGTCCATTGAGAACTTTTTAGCGT-ATTTGGAAAACTTGTTATTTTGGACCTATC-AGGC
          1 AGATTAGTCCACTGTGAAGTTTTTAGC-TCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGC

                    **   *       *                             *             
         68 CCATTAGTAACGTATTGAATCTTCTTCGATTTGGCAAACCTCAATGCTTTTATTTCCATTGTTTA
         65 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTA

                    * *              
        133 TGGCCTAATTGTAATCATTTTAGTG
        130 TGGCCTAACTATAATCATTTTAGTG

               *                             *                               
        158 AGAATAGTCCACTGTGAAGTTTTTAGCTCATTTAGAACACTTGTTATTTTGGGCCTATCGAGGCC
          1 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCC

                         * *                                                 
        223 CATTAGTTCCGTTCTAAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAT
         66 CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAT

                    *       *   *  *
        288 GGCCTAACCATAATCAATTTGGTC
        131 GGCCTAACTATAATCATTTTAGTG

                       *      *         *        *                      *    
        312 AGATTAGTCCATTGTGAAATTTTTAGCTTATTTGGAAAACTTGTTATTTTGGGCCTATCGGGGCC
          1 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCC

                   **   *  *            *   *                                
        377 CATTAGTGACGTATTAAATCGTCTTCGAATTGCCAAACCTCAATGCTTTTCTTTCCATTGTTTAT
         66 CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAT

                                *   
        442 GGCCTAACTATAATCATTTTGGTG
        131 GGCCTAACTATAATCATTTTAGTG

                        *                                *              *   *
        466 AGATTAGTCCACCGTGAAGTTTTTAGCTCATTTGGAACACTTGTTTTTTTGGGCCTATCGGGGCT
          1 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCC

                                                                             
        531 CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTAT-TTTCCATTGTTTA
         66 CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTT-TCTTTCCATTGTTTA

                *                    
        595 TGGCATAACTATAATCATTTTAGTG
        130 TGGCCTAACTATAATCATTTTAGTG

                                                                             
        620 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCC
          1 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCC

                     *     *                                                 
        685 CATTAGTTCTGTTTTAAATCGTCTTCGATTTGGCAAACCTCAAAT-CTTTTCTTTCCATTGTTTA
         66 CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTC-AATGCTTTTCTTTCCATTGTTTA

                *   *                
        749 TGGCATAAGTATAATCATTTTAGTG
        130 TGGCCTAACTATAATCATTTTAGTG

                                                     *                       
        774 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTAGGAACACCTGTTATTTTGGGCCTATC-AGGG
          1 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTT-GGAACACTTGTTATTTTGGGCCTATCGA-GG

                     **           *                   *    *         *       
        838 CCCATTAGTGACGTTTTGAATCATCTTCGATTTGGCAAACCTTAATGGTTTTCTTTCTATTGTTT
         64 CCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTT

                          *           
        903 ATGGCCTAACTATAGTCATTTTAGTG
        129 ATGGCCTAACTATAATCATTTTAGTG

                               *     *                 *       **   *   *    
        929 AGATTAGTCCACTGTGAAGCTTTTAACTCATTTGGAACACTTGCTATTTTGTCCCTTTCGGGGCC
          1 AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCC

                      *                    
        994 CATTAGTTCCATTTTGAATCGTCTTCGATTT
         66 CATTAGTTCCGTTTTGAATCGTCTTCGATTT


Statistics
Matches: 776,  Mismatches: 82, Indels: 17
        0.89            0.09        0.02

Matches are distributed among these distances:
 152    1  0.00
 153   51  0.07
 154  586  0.76
 155  138  0.18

ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41


Consensus pattern (154 bp):   
AGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCC
CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAT
GGCCTAACTATAATCATTTTAGTG

Done.