Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011540.1 Corchorus olitorius cultivar O-4 contig11573, 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: 1855
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37


Found at i:1265 original size:154 final size:154

Alignment explanation


    Indices: 916--1855  Score: 1450
    Period size: 154  Copynumber: 6.1  Consensus size: 154

        906 GTTATGATTG

                        *                               *          *   *     
        916 TTTCCATTGTTTTTGGCCTAACTATAATCATTTTGGTGAGATTATTCCACTGTGATGTTCTTAGC
          1 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC

                                          *  *                       *       
        981 TCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGACGTTTTGAATTGTCTT-G
         66 TCATTTGGAACACTTGTTATTTTGGGCCTAACGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG

                     *         *    
       1045 ATTTGGCAACCCTCAATGCATTTC
        131 ATTTGGCAAACCTCAATGCTTTTC

                          *                                    *             
       1069 TTTCCATTGTTTATAGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTCTGAAGTTTTTAGC
          1 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC

                                          *      *  *      *                 
       1134 TCATTTGGAACACTTGTTATTTTGGGCCTACCGGGGCTCACTAGTGATGTTTTGAATCGTCTTCG
         66 TCATTTGGAACACTTGTTATTTTGGGCCTAACGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG

                                    
       1199 ATTTGGCAAACCTCAATGCTTTTC
        131 ATTTGGCAAACCTCAATGCTTTTC

                                                                             
       1223 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC
          1 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC

                                                         **                  
       1288 TCATTTGGAACACTTGTTATTTTGGGCCTAACGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCG
         66 TCATTTGGAACACTTGTTATTTTGGGCCTAACGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG

                 *   *            * 
       1353 ATTTGACAACCCTCAATGCTTTCC
        131 ATTTGGCAAACCTCAATGCTTTTC

                  *                              *                           
       1377 TTTCCAATGTTTATGGCCTAACTATAATCATTTTGGTAAGATTAGTCCACTGTGAAGTTTTTAGC
          1 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC

                                          *  *                               
       1442 TCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGACGTTTTGAATCGTCTTCG
         66 TCATTTGGAACACTTGTTATTTTGGGCCTAACGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG

                     *     *        
       1507 ATTTGGCAATCCTCATTGCTTTTC
        131 ATTTGGCAAACCTCAATGCTTTTC

                                                 * *     *     *           * 
       1531 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTAATATTAGGCCACTTTGAAGTTTTTATC
          1 TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC

                         *      *                        ** *                
       1596 TCATTTGGAACACCTGTTATATTGGGCCTAACGGGGCCCATTAGTTCCATTTTGAATCGTCTTCG
         66 TCATTTGGAACACTTGTTATTTTGGGCCTAACGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG

                      *             
       1661 ATTTGGCAAAACTCAATGCTTTTC
        131 ATTTGGCAAACCTCAATGCTTTTC

                               *                              *    *         
       1685 TTTCCATTGTTTATGGCCTTACTATAATCATTTTTGGTGAGATTAGTCCAGTGTGCAGTTTTTAG
          1 TTTCCATTGTTTATGGCCTAACTATAATCA-TTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

               *                           *      *  *      * *              
       1750 CTCTTTTGGAACACTTGTTATTTTGGGCCTACCGGGGCTCACTAGTGATGATTTGAATCGTCTTC
         65 CTCATTTGGAACACTTGTTATTTTGGGCCTAACGGGGCCCATTAGTGACGTTTTGAATCGTCTTC

                                     
       1815 GATTTGGCAAACCTCAATGCTTTTC
        130 GATTTGGCAAACCTCAATGCTTTTC

                            
       1840 TTTCCATTGTTTATGG
          1 TTTCCATTGTTTATGG


Statistics
Matches: 715,  Mismatches: 70, Indels: 2
        0.91            0.09        0.00

Matches are distributed among these distances:
 153  116  0.16
 154  478  0.67
 155  121  0.17

ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41


Consensus pattern (154 bp):   
TTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC
TCATTTGGAACACTTGTTATTTTGGGCCTAACGGGGCCCATTAGTGACGTTTTGAATCGTCTTCG
ATTTGGCAAACCTCAATGCTTTTC

Done.