Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011637.1 Corchorus olitorius cultivar O-4 contig11670, 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: 1969
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39


Found at i:340 original size:154 final size:154

Alignment explanation


    Indices: 59--1064  Score: 1622
    Period size: 154  Copynumber: 6.5  Consensus size: 154

         49 TCAATTTTGA

                          *       *                                          
         59 GAGATTAGTCCACTATGAAGTTCTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC
          1 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC

                                                        *                    
        124 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTA
         66 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA

                                    
        189 TGGCCTAACTATAATCATTTTGGT
        131 TGGCCTAACTATAATCATTTTGGT

                                      *                         *            
        213 GAGATTAGTCCACTGTGAAGTTTTTACCTCATTTGGAACACTTGTTATTTTGTGCCTATCGGGGC
          1 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC

             *   *                                                  *        
        278 CTATTGGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTT-AAGTTGTTT
         66 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCA-TTGTTT

              *                    * 
        342 ATAGCCTAACTATAATCATTTTGAT
        130 ATGGCCTAACTATAATCATTTTGGT

                          *       *                                      *   
        367 GAGATTAGTCCACTATGAAGTTCTTAGCTCATTTGGAACTACTTGTTATTTTGGGCCTATCAGGG
          1 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC-ACTTGTTATTTTGGGCCTATCGGGG

            *                                                                
        432 TCCATTAGTTCCG-TTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTT
         65 CCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTT

                *                    
        496 ATGGACTAACTATAATCATTTTGGT
        130 ATGGCCTAACTATAATCATTTTGGT

                *                                                            
        521 GAGAATAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC
          1 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC

                    ** *                             *  *                    
        586 CCATTAGTGACATTTTGAATCGTCTTCGATTTGGCAAACCTTAAGGCTTTTCTTTCCATTGTTTA
         66 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA

                                    
        651 TGGCCTAACTATAATCATTTTGGT
        131 TGGCCTAACTATAATCATTTTGGT

                                                                             
        675 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC
          1 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC

             *                                                      *        
        740 CTATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTT-AAGTTGTTT
         66 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCA-TTGTTT

                                   * 
        804 ATGGCCTAACTATAATCATTTTGAT
        130 ATGGCCTAACTATAATCATTTTGGT

                    *     *       *                                       *  
        829 GAGATTAGACCACTATGAAGTTCTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGTGC
          1 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC

                    **                      *                           *    
        894 CCATTAGTGACGTTTTGAATCGTCTTCGATTTTGCAAACCTCAAAGCTTTTCTTTCCATTTTTTA
         66 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA

               *            *       
        959 TGGACTAACTATAATCTTTTTGGT
        131 TGGCCTAACTATAATCATTTTGGT

                     **                *                               *     
        983 GAGATTAGTTTACTGTGAAGTTTTTAGTTCATTTGGAACACTTGTTATTTTGGGCCTATTGGGGC
          1 GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC

                             
       1048 CCATTAGTTCCGTTTTG
         66 CCATTAGTTCCGTTTTG

       1065 TTTTTACCCA


Statistics
Matches: 781,  Mismatches: 65, Indels: 12
        0.91            0.08        0.01

Matches are distributed among these distances:
 153   35  0.04
 154  711  0.91
 155   35  0.04

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


Consensus pattern (154 bp):   
GAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGC
CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
TGGCCTAACTATAATCATTTTGGT

Done.