Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011660.1 Corchorus olitorius cultivar O-4 contig11693, 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, 613

Length: 1023
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41


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

Alignment explanation


    Indices: 1--1023  Score: 1661
    Period size: 154  Copynumber: 6.6  Consensus size: 154

                                                 *                    *      
          1 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTAGTGAGATTAGTCCACTGTGAGGTTTTT
          1 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT

                                                                    *        
         66 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTAAATCGTCT
         66 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCT

                                    
        131 TCGATTTGGCAAACCTCAATGCTT
        131 TCGATTTGGCAAACCTCAATGCTT

                                     *       *      *           *      *     
        155 TTCTTTCCATTGTTTATGGCCTAACCATAATCAATTTGGTCAGATTAGTCCATTGTGAAATTTTT
          1 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT

                *        *                                  **   *  *        
        220 AGCTTATTTGGAAAACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTAAATCGTCT
         66 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCT

                          *         
        285 TCGATTTGGCAAACTTCAATGCTT
        131 TCGATTTGGCAAACCTCAATGCTT

                     *                                                     * 
        309 TTCTTTCCACTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTAT
          1 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT

                                                 *                           
        374 AGCTCATTTGGAACTACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTTCCGTTTTGAATCGTC
         66 AGCTCATTTGGAAC-ACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTC

                                *    
        439 TTCGATTTGGCAAACCTCAAAGCTT
        130 TTCGATTTGGCAAACCTCAATGCTT

                                                                             
        464 TTCTTTCCTATTGTTTATGGCCTAACTATAATCATTTTAGGTGAGATTAGTCCACTGTGAAGTTT
          1 TTCTTTCC-ATTGTTTATGGCCTAACTATAATCATTTT-GGTGAGATTAGTCCACTGTGAAGTTT

                                         *                                   
        529 TTAGCTCATTTGGAACACTTGTTTATTTTAGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCG
         64 TTAGCTCATTTGGAACACTTG-TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCG

                                       
        594 TCTTCGATTTGGCAAACCTCAATGCTT
        128 TCTTCGATTTGGCAAACCTCAATGCTT

                               *                             *         *     
        621 TTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTTCACTGTGAAATTTTT
          1 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT

                         *                               *  ** *             
        686 AGCTCATTTGGAATACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATTTTGAATCGTCT
         66 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCT

                    *          *    
        751 TCGATTTGCCAAACCTCAAGGCTT
        131 TCGATTTGGCAAACCTCAATGCTT

                                           *            *                    
        775 TTCTTTCCATTGTTTATGGCCTAACTATAATTATTTTGGTGAGAATAGTCCACTGTGAAG-TTTT
          1 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT

                                           *                         *       
        839 AGCTCATTTGGAACACTTGTTATTTTGGGCCAATCGGGGCCCATTAGGTTCCGTTTTCAATCGTC
         66 AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTA-GTTCCGTTTTGAATCGTC

              *                    * 
        904 TTTGATTTGGCAAACCTCAATGCGT
        130 TTCGATTTGGCAAACCTCAATGCTT

                               *                                             
        929 TTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT
          1 TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT

                                          
        994 AGCTCATTTGGAACACTTGTTATTTTGGGC
         66 AGCTCATTTGGAACACTTGTTATTTTGGGC


Statistics
Matches: 799,  Mismatches: 64, Indels: 11
        0.91            0.07        0.01

Matches are distributed among these distances:
 153   47  0.06
 154  421  0.53
 155  154  0.19
 156   61  0.08
 157  116  0.15

ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41


Consensus pattern (154 bp):   
TTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT
AGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCT
TCGATTTGGCAAACCTCAATGCTT

Done.