Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011645.1 Corchorus olitorius cultivar O-4 contig11678, 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, 607

Length: 1012
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40


Found at i:420 original size:154 final size:154

Alignment explanation


    Indices: 1--1012  Score: 1555
    Period size: 154  Copynumber: 6.6  Consensus size: 154

                                  *         *        **                      
          1 GTTTTGAATCGTCTTCGATTTGAC-AACCTTCGATGCTTTTGATTCCATTGTTTATGGCCTAACT
          1 GTTTTGAATCGTCTTCGATTTGGCAAACC-TCAATGCTTTTCTTTCCATTGTTTATGGCCTAACT

                                                     *    *     *            
         65 ATAATCA-TTTGGTGAGATTAGTCCACTGTGAA-TTTTTAGATCATATGGAAAACTTGTTATTTT
         65 ATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT

                 *                   
        128 GGGCCAATCGGGGACCATTAGTGAC
        130 GGGCCTATCGGGGACCATTAGTGAC

                      *                         *    *                     * 
        153 GTTTTGAATCCTCTTCGATTTGGC-AACCTCAAT-CCTTTCGTTCCATTGTTT-TGGCCTAACGA
          1 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

                                        *                                    
        215 TAATCATTTTGGTGAGATTAGTCCACTGAGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG
         66 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

                                 *  
        280 GGCCTATCGGGGACCATTAGTAAC
        131 GGCCTATCGGGGACCATTAGTGAC

                                               *                             
        304 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGATTTTCTTTCCATTGTTTATGGCCTAACTA
          1 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

                                                  *                          
        369 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTTGCTCATTTGGAACACTTGTTATTTTG
         66 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

                      *             
        434 GGCCTATCGGAGACCATTAGTGAC
        131 GGCCTATCGGGGACCATTAGTGAC

                                   *                                 *       
        458 GTTTTGAATCGTCTTCGATTTGGAAAACCTCAATGCTTTTCTTTCCATTGTTTATGGTCTAACTA
          1 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

                                              *                *             
        523 TAATCATTTTGGTGAGATTTA-TCCACTGTGAAGGTTTTAGCTCATTTGGAGCACTTGTTATTTT
         66 TAATCATTTTGGTGAGA-TTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT

                                     
        587 GGGCCTATCGGGGACCATTAGTGAC
        130 GGGCCTATCGGGGACCATTAGTGAC

                      *                        *                             
        612 GTTTTGAATCATCTTCGATTTGGCAAACCTCAATGATTTTCTTTCCATTGTTTATGGCCTAACTA
          1 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

                               *                  *                          
        677 TAATCATTTTGGTGAGATTTGTCCACTGTGAAGTTTTTTGCTCATTTGGAACACTTGTTATTTTG
         66 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

            **     * *  *            
        742 TTCCTATTGAGGCCCATTAGTGTAC
        131 GGCCTATCGGGGACCATTAGTG-AC

                                              *                              
        767 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATTC-TTTC-TTCCATTGTTTATGGCCTAACTA
          1 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

                                                                             
        830 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTG-TATTTTG
         66 TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG

                   * *  *    *      
        894 GGCCTATAGAGGCCCATCAGTGAC
        131 GGCCTATCGGGGACCATTAGTGAC

                                            * *                              
        918 GTTTTGAATCGTCTTCGATTTGGCAAACCTCATTTC-TTTCTTTCCATTG-TTATGGCCTAACTA
          1 GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA

            *    *                           
        981 CAATCCTTTTGGTGAGATTAGTCCA-TGTGAAG
         66 TAATCATTTTGGTGAGATTAGTCCACTGTGAAG


Statistics
Matches: 797,  Mismatches: 54, Indels: 20
        0.92            0.06        0.02

Matches are distributed among these distances:
 149   16  0.02
 150   46  0.06
 151  156  0.20
 152   68  0.09
 153   95  0.12
 154  378  0.47
 155   38  0.05

ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40


Consensus pattern (154 bp):   
GTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTA
TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTG
GGCCTATCGGGGACCATTAGTGAC

Done.