Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011808.1 Corchorus olitorius cultivar O-4 contig11841, 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, 635

Length: 1059
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40


Found at i:297 original size:154 final size:154

Alignment explanation


    Indices: 1--1059  Score: 1607
    Period size: 154  Copynumber: 6.9  Consensus size: 154

                                                                             
          1 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC
          1 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC

                        *                               **    *       *      
         66 TATTTGGAACACCTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTACTT-AATCTTCTTCG
         66 -ATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGT-TTTGAATCGTCTTCG

                                      
        130 ATTTGGCAAACCTCAATGCTTTTCTT
        129 ATTTGGCAAACCTCAATGCTTTTCTT

                         *           *            *               *          
        156 TCCATTGTTTATGACCTAACTATAACCATTTTGGTGAGGTTAGTCCACTGTGAACTTTTTAGCTC
          1 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC

                                             *                               
        221 ATTTGGAACACTTGTTATTTTGGGCCTATCGGGACCCATTAGTTCCGTTTTGAATCGTCTTCGAT
         66 ATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGAT

                                 *  
        286 TTGGCAAACCTCAATGCTTTTTTT
        131 TTGGCAAACCTCAATGCTTTTCTT

                        **            *                           *          
        310 TCCATTGTTTATCACCTAACTATAATAATTTTGGTGAGATTAGTCCACTGTGAACTTTTTAGCTC
          1 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC

             *        *     *                     *      *    *    *         
        375 AGTTGGAACAATTGTTTTTTTGGGCCTATCGGGGCCCAATAGTTCTGTTTAGAATTGTCTTCGAT
         66 ATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGAT

                          *         
        440 TTGGCAAACCTCAACGCTTTTCTT
        131 TTGGCAAACCTCAATGCTTTTCTT

                                                             *           *   
        464 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTATGAAGTTTTTAACTC
          1 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC

             * *                        *      *              *      *       
        529 AGTCGGAACACTTGTTATTTTGGGCCTAACGGGGCTCATTAGTTCCGTTTGGAATCGCCTTCGAT
         66 ATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGAT

              *                     
        594 TTAGCAAACCTCAATGCTTTTCTT
        131 TTGGCAAACCTCAATGCTTTTCTT

            *                 *                                             *
        618 ACCATTGTTTATGGCCTAGCTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTT
          1 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC

                                      *    *                                 
        683 ATTTGGAACACTTGTTATTTTGGGCCAATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGAT
         66 ATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGAT

                       *             
        748 TTGGCAAACCTTAATGCTTTTCTTT
        131 TTGGCAAACCTCAATGCTTTTC-TT

                                                                             
        773 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC
          1 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC

               *                              **                             
        838 ATTCGGAACACTTGTTATTTTGGGCCTATCGGGGATCATTAGTTCCGTTTTGAATCGTCTTCGAT
         66 ATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGAT

                                   *
        903 TTGGCAAACCTCAATGCTTTTCTA
        131 TTGGCAAACCTCAATGCTTTTCTT

                                    *      *               * *    *          
        927 TCCATTGTTTATGGCCTAACTATAGTCATTTCGGTGAGATTAGTCCATTATGAACTTTTTAGCTC
          1 TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC

             *                                         **   *      *         
        992 AGTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAACGCGTCTTCGA
         66 ATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAA-TCGTCTTCGA

               
       1057 TTT
        130 TTT


Statistics
Matches: 820,  Mismatches: 81, Indels: 6
        0.90            0.09        0.01

Matches are distributed among these distances:
 153    2  0.00
 154  600  0.73
 155  218  0.27

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


Consensus pattern (154 bp):   
TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC
ATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGAT
TTGGCAAACCTCAATGCTTTTCTT

Done.