Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009087.1 Corchorus olitorius cultivar O-4 contig09115, 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, 628

Length: 1047
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41


Found at i:346 original size:154 final size:152

Alignment explanation


    Indices: 1--1047  Score: 1487
    Period size: 154  Copynumber: 6.8  Consensus size: 152

                       *           *            *                          * 
          1 GCATATCGAGGGCCATTAGTTCCATTTTGAATCGTCGTCGATTTGGCAACCCTCAATGCTTTTGT
          1 GCATATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCT

                                                 *             *          *  
         66 TTCCAATGTTTATGGCCTAACTATAATCAGTTTTGGTAAGATTAGTCCACTTTGAAGTTTTTTG-
         66 TTCC-ATGTTTATGGCCTAACTATAATCA-TTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC

                                      
        130 TCTATTTGGAACACTTGTTA-TTTGG
        129 TC-A-TTGGAACACTTGTTATTTTGG

              *                     *                     *                  
        155 GCCTATCG-GTCGCCCATTAGTTCTGTTTTGAATCGTCTTCGATTTAGCAACCCTCAATGCTTTT
          1 GCATATCGAG--GCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTT

                                                                             
        219 CTTTCCATCGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG
         64 CTTTCCAT-GTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAG

                             *        
        284 CTCACTTGGAACACTTGCTATTTTGG
        128 CTCA-TTGGAACACTTGTTATTTTGG

                       *                                                     
        310 GCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCT
          1 GCATATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCT

                                             *  *             *              
        375 TTCCTATGTTTATGGCCTAACTATAATCATTTTAGTAAGATTAGTCCACTTTGAAGTTTTTAGCT
         66 TTCC-ATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT

                                    
        440 CATTTGGAACACTTGTTATTTTGG
        130 CA-TTGGAACACTTGTTATTTTGG

              *     *                                                        
        464 GCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCT
          1 GCATATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCT

                       *                                                  *  
        529 TTCCATTGTTTTTGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTACCT
         66 TTCCA-TGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT

                                    
        594 CACTTGGAACACTTGTTATTTTGG
        130 CA-TTGGAACACTTGTTATTTTGG

                       *                                                    *
        618 GCATATCGAGGACCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCG
          1 GCATATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCT

                                                                   *     * * 
        683 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAATTTTTTGGTT
         66 TTCCA-TGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT

                          *         
        748 CATTAGGAACACTTATTATTTTGG
        130 CATT-GGAACACTTGTTATTTTGG

                    *            **           *                        *     
        772 GTC-TATCTAGGCCCATTAGTGACGTTTTGAATCATCTTCGATTTGGCAACCCTCAATGTTTTTC
          1 G-CATATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTC

            *                                      *                      * *
        836 GTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGTCCACTGTGAA-TTTTTGGT
         65 TTTCCA-TGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC

                           *         
        900 TCATTAGGAACACTTTTTATTTTGG
        129 TCATT-GGAACACTTGTTATTTTGG

              * *   *           **           *       *                       
        925 GCCTTTCGGGGCCCATTAGTGACGTTTTGAATCATCTTCGAATTGGCAACCCTCAATGC-TTT-T
          1 GCATATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCT

                                                *             *         
        988 TTCCAATGTTTATGGCCTAACTATAATCATTTTGGTAAGATTAGTCCACTTTGAAGTTTT
         66 TTCC-ATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTT


Statistics
Matches: 823,  Mismatches: 57, Indels: 28
        0.91            0.06        0.03

Matches are distributed among these distances:
 151   50  0.06
 152    9  0.01
 153   88  0.11
 154  583  0.71
 155   92  0.11
 156    1  0.00

ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41


Consensus pattern (152 bp):   
GCATATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCT
TTCCATGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTC
ATTGGAACACTTGTTATTTTGG

Done.