Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011677.1 Corchorus olitorius cultivar O-4 contig11710, 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, 907

Length: 1513
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41


Found at i:291 original size:154 final size:154

Alignment explanation


    Indices: 1--1513  Score: 2368
    Period size: 154  Copynumber: 9.8  Consensus size: 154

                                       *           **   *                    
          1 GGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

                                              *                              
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGTCTAACTATAATCATTTTGGTGAGATTAGTC
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC

                     *              
        131 CACTGTGAACTTTTTAGCTCATTT
        131 CACTGTGAAGTTTTTAGCTCATTT

                *                                 *                          
        155 GGAATACTTGTTATTTTGGGCCTATCGGGGCCCATTAGCGACGTATTGAATCGTCTTCGATTTGG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

                     *                                            *          
        220 CAAACCTCAGTGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGAGAGATTAGTC
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC

             *       *         *    
        285 CGCTGTGAACTTTTTAGCTAATTT
        131 CACTGTGAAGTTTTTAGCTCATTT

                                                                *       *    
        309 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCTTCTTCGAATTGG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

               *             *   *                                           
        374 CAAGCCTCAATGCTTTTGTTTTCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC

                  *  *           *  
        439 CACTGTAAACTTTTTAGCTCAGTT
        131 CACTGTGAAGTTTTTAGCTCATTT

                                *                     *               *      
        463 GGAACACTTGTTATTTTGGGTCTATCGGGGCCCATTAGTGACATATTGAATCGTCTTCTATTTGG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

                                          *                                  
        528 CAAACCTCAATGCTTTTCTTTCCATTGTTTTTGGCCTAACTATAATCATTTTGGTGAGATTAGTC
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC

                        *           
        593 CACTGTGAAGTTCTTAGCTCATTT
        131 CACTGTGAAGTTTTTAGCTCATTT

                *                                                            
        617 GGAATACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

                     *                                        *              
        682 CAAACCTCAGTGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTGTGGTGAGATTAGTC
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC

                     *              
        747 CACTGTGAACTTTTTAGCTCATTT
        131 CACTGTGAAGTTTTTAGCTCATTT

                                                   *            *       *    
        771 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTAACGTATTGAATCTTCTTCGAATTGG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

                             *                                   * **       *
        836 CAAACCTCAATGCTTTTGTTTCCATTGTTTATGGCCTAACTATAATCATTTTGTTTTGATTAGTA
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC

                *                   
        901 CACTTTGAAGTTTTTAGCTCATTT
        131 CACTGTGAAGTTTTTAGCTCATTT

                                       *                              *      
        925 GGAACACTTGTTATTTTGGGCCTATCGTGGCCCATTAGTGACGTATTGAATCGTCTTCTATTTGG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

                    *                      *           *  *                  
        990 CAAACCTCCATGCTTTTCTTTCCATTGTTTAGGGCCTAACTATTATTATTTTGGTGAGATTAGTC
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC

                                    
       1055 CACTGTGAAGTTTTTAGCTCATTT
        131 CACTGTGAAGTTTTTAGCTCATTT

                                 *                 ** * *                  * 
       1079 GGAACACTTGTTATTTTGGGCTTATCGGGGCCCATTAGTTCCATTTTGAATCGTCTTCGATTTAG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

                   *                          *                 *            
       1144 CAAACCTTAATGCTTTTCTTTCCATTGTTTATGGTCTAACTATAATCATTTTTGTGAGATTAGTC
         66 CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC

                          *          
       1209 CACTGTGAAGTTTTAACGCTCATTT
        131 CACTGTGAAGTTTTTA-GCTCATTT

                                          *             *                    
       1234 GGAACACTTGTTATTTTGGGCCTATCGGGGACCATTAGTGACGTTTTGAATCGTCTTCGATTTGG
          1 GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG

                     *    *                 *                                
       1299 C-AACCTTCGATGCCTTTCTTTCCATTGTTTACGGCCTAACTATAATCATTTTGGTGAGATTAGT
         66 CAAACC-TCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT

                          *          
       1363 CCACTGTGAAGTTTGTAGCTCATTT
        130 CCACTGTGAAGTTTTTAGCTCATTT

                                          **             *                   
       1388 GGAACACTTGTTATTTTGGGCCTATCGCGGAACCATTAGTGACGTTTTGAATCGTCTTCGATTTG
          1 GGAACACTTGTTATTTTGGGCCTATCG-GGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTG

                                              *    **                       
       1453 GCAAACCTCAATGC-TTT-TTTCCATTGTTTATGTCCTATTTATAATCA-TTTGGTGAGATTAG
         65 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAG


Statistics
Matches: 1245,  Mismatches: 110, Indels: 10
        0.91            0.08        0.01

Matches are distributed among these distances:
 152   14  0.01
 153   26  0.02
 154  1022  0.82
 155  179  0.14
 156    4  0.00

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


Consensus pattern (154 bp):   
GGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTGG
CAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTC
CACTGTGAAGTTTTTAGCTCATTT

Done.