Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011698.1 Corchorus olitorius cultivar O-4 contig11731, 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:0.22, C:0.17, G:0.18, T:0.42


Found at i:866 original size:155 final size:154

Alignment explanation


    Indices: 1--1024  Score: 1747
    Period size: 154  Copynumber: 6.7  Consensus size: 154

                                                                             
          1 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT
          1 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT

                                                                       *     
         66 TATTTTGGGCCATTCGAGGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAAGCACAA
         66 TATTTTGGGCCATTCG-GGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAACCACAA

                                     
        131 TGCTTTTCTTTCCATTGTTTATGGC
        130 TGCTTTTCTTTCCATTGTTTATGGC

                                                                             
        156 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT
          1 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT

                 *  *                 *                             *       *
        221 TATTTCGGACCATTCGGGGCCCATTAATTCGGTTTTGAATCGTCTTCGATTTGTCATACCACAAC
         66 TATTTTGGGCCATTCGGGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAACCACAAT

                                   *
        286 GCTTTTCTTTCCATTGTTTATGGG
        131 GCTTTTCTTTCCATTGTTTATGGC

                 *                                                           
        310 CTAACAATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT
          1 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT

                     *          *             *                     *        
        375 TATTTTGGGTCATTCGGGG-ACATTAGTTCGGTTCTGAA---TCTTCGTATTTGTCGAACCACAA
         66 TATTTTGGGCCATTCGGGGCCCATTAGTTCGGTTTTGAATCGTCTTCG-ATTTGTCAAACCACAA

                                     
        436 TGCTTTTCTTTCCATTGTTTATGGC
        130 TGCTTTTCTTTCCATTGTTTATGGC

                                                                             
        461 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT
          1 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT

                     *          *             *                              
        526 TATTTTGGGTCATTCGGGG-ACATTAGTTCGGTTCTGAATCGTCTTCGATTTGTCAAACCACAAT
         66 TATTTTGGGCCATTCGGGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAACCACAAT

                                    
        590 GCTTTTCTTTCCATTGTTTATGGC
        131 GCTTTTCTTTCCATTGTTTATGGC

                                                                             
        614 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT
          1 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT

              *            *                                          *      
        679 TACTTTGGGCCATTCAGGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAAGCACAAT
         66 TATTTTGGGCCATTCGGGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAACCACAAT

                                    
        744 GCTTTTCTTTCCATTGTTTATGGC
        131 GCTTTTCTTTCCATTGTTTATGGC

                                                                             
        768 CTAACTATAATCATTTTGAGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTG
          1 CTAACTATAATCATTTTG-GTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTG

             *                                                         *     
        833 TCATTTTGGGCCATTCGGGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAAGCACAA
         65 TTATTTTGGGCCATTCGGGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAACCACAA

                            *      * 
        898 TGCTTTTCTTTCCATTTTTTATGAC
        130 TGCTTTTCTTTCCATTGTTTATGGC

                                                                        *    
        923 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAG-TTTTAGCTCATTTTGAACAGTTGT
          1 CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT

                     *          *                  
        987 TATTTTGGGTCATTCGGGG-ACATTAGTTCGGTTTTGAA
         66 TATTTTGGGCCATTCGGGGCCCATTAGTTCGGTTTTGAA


Statistics
Matches: 828,  Mismatches: 35, Indels: 15
        0.94            0.04        0.02

Matches are distributed among these distances:
 150    6  0.01
 151  139  0.17
 152   18  0.02
 153  177  0.21
 154  260  0.31
 155  228  0.28

ACGTcount: A:0.22, C:0.17, G:0.18, T:0.42


Consensus pattern (154 bp):   
CTAACTATAATCATTTTGGTAAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTTGAACACTTGT
TATTTTGGGCCATTCGGGGCCCATTAGTTCGGTTTTGAATCGTCTTCGATTTGTCAAACCACAAT
GCTTTTCTTTCCATTGTTTATGGC
Done.