Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011908.1 Corchorus olitorius cultivar O-4 contig11941, 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, 769

Length: 1283
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42


Found at i:281 original size:154 final size:153

Alignment explanation


    Indices: 1--1283  Score: 1944
    Period size: 154  Copynumber: 8.3  Consensus size: 153

                                      *         *                            
          1 TGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCCTCTTCGATTTGGCAACCCTCAATGCTTT
          1 TGGGCCTATCGGGGCCCATTAGTT-CTTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT

                                                      *                      
         66 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGTTTAGTCCACTGTGAAGTTTTTA
         65 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA

            *                       
        131 GCTCATTTGGAACACTTGTTATTT
        130 ACTCATTTGGAACACTTGTTATTT

                  *                                                          
        155 TGGGCCCATCGGGGCCCATTAGTTCCTTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT
          1 TGGGCCTATCGGGGCCCATTAGTT-CTTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT

                               *                          *    *             
        220 TCTTTCCATTGTTTATGGCGTAACTATAATCATTTTGGTGAGATTACTCCATTGTGAAGTTTTTA
         65 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA

                                    
        285 ACTCATTTGGAACACTTGTTATTT
        130 ACTCATTTGGAACACTTGTTATTT

                            *       *          *                             
        309 TGGGCCTATCGGGGCCAATTAGTTTTGTTTTGAATTGTCTTCGATTTGGCAACCCTCAATGCTTT
          1 TGGGCCTATCGGGGCCCATTAGTTCT-TTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT

               *      *      *      *     *          *                       
        374 TCTATCCATTTTTTATGCCCTAACAATAATAATTTTGGTGACATTAGTCCACTGTGAAGTTTTTA
         65 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA

                                    
        439 ACTCATTTGGAACACTTGTTATTT
        130 ACTCATTTGGAACACTTGTTATTT

                            *       *          *                             
        463 TGGGCCTATCGGGGCCAATTAGTTTTGTTTTGAATTGTCTTCGATTTGGCAACCCTCAATGCTTT
          1 TGGGCCTATCGGGGCCCATTAGTTCT-TTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT

                               *    *                     *                  
        528 TCTTTCCATTGTTTATGGCGTAACAATAATCATTTTGGTGAGATTACTCCACTGTGAAGTTTTTA
         65 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA

                              *     
        593 ACTCATTTGGAACACTTGCTATTT
        130 ACTCATTTGGAACACTTGTTATTT

                            *       *          *                             
        617 TGGGCCTATCGGGGCCAATTAGTTTTGTTTTGAATTGTCTTCGATTTGGCAACCCTCAATGCTTT
          1 TGGGCCTATCGGGGCCCATTAGTTCT-TTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT

                             *                   *   *                       
        682 TCTTTCCATTGTTTATGCCCTAACTATAATCATTTTGCTGATATTAGTCCACTGTGAAGTTTTTA
         65 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA

                             *      
        747 ACTCATTTGGAACACTTTTTATTT
        130 ACTCATTTGGAACACTTGTTATTT

                 *                  * *                                      
        771 T-GGCATATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTT-GCAACCCTCAATGCTTT
          1 TGGGCCTATCGGGGCCCATTAGT-TCTTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT

                            *              *                                 
        834 TCTTTCCATTGTTTATAGCCTAAC-ATTAATAATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT
         65 TCTTTCCATTGTTTATGGCCTAACTA-TAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTT

             *                       
        898 AGCTCATTTGGAACACTTGTTATTT
        129 AACTCATTTGGAACACTTGTTATTT

               *            *       *          *                             
        923 TGGACCTATCGGGGCCAATTAGTTTTGTTTTGAATTGTCTTCGATTTGGCAACCCTCAATGCTTT
          1 TGGGCCTATCGGGGCCCATTAGTTCT-TTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT

                                                                            *
        988 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTC
         65 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA

            *                *      
       1053 GCTCATTTGGAACACTTATTATTT
        130 ACTCATTTGGAACACTTGTTATTT

                                      *        *                             
       1077 TGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATAGTCTTCGATTTGGCAACCCTCAATGCTTT
          1 TGGGCCTATCGGGGCCCATTAGTT-CTTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT

                             *                            *                  
       1142 TCTTTCCATTGTTTATGCCCTAACTATAATCATTTTGGTGAGATTACTCCACTGTGAAGTTTTTA
         65 TCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTA

            *             *  *      
       1207 GCTCATTTGGAACAATTTTTATTT
        130 ACTCATTTGGAACACTTGTTATTT

                        *  *        * *               *           
       1231 TGGGCCTATCGGAGCTCATTAGTGACGTTTTGAATCGTCTTCTATTT-GCAACC
          1 TGGGCCTATCGGGGCCCATTAGT-TCTTTTTGAATCGTCTTCGATTTGGCAACC


Statistics
Matches: 1044,  Mismatches: 76, Indels: 19
        0.92            0.07        0.02

Matches are distributed among these distances:
 151    1  0.00
 152   98  0.09
 153   82  0.08
 154  862  0.83
 155    1  0.00

ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42


Consensus pattern (153 bp):   
TGGGCCTATCGGGGCCCATTAGTTCTTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTT
CTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAA
CTCATTTGGAACACTTGTTATTT

Done.