Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011749.1 Corchorus olitorius cultivar O-4 contig11782, 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, 885

Length: 1475
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41


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

Alignment explanation


    Indices: 1--1475  Score: 2387
    Period size: 154  Copynumber: 9.6  Consensus size: 154

                 *              *      *            **                       
          1 TGGAAAACTTGTTATTTTGGACCTATCAGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTG
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG

                    *                          *      *                      
         66 GCAAACCTTAATGCTTTTCTTTCCATTGTTTATGGACTAACTGTAATCATTTTGGTGAGATTAGT
         66 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT

                           *        
        131 CCACTGTGAAGTTTTAAGCTCATT
        131 CCACTGTGAAGTTTTTAGCTCATT

                                    *  **                                    
        155 TGGAACACTTGTTATTTTGGGCCTCTCAAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG

                 *                                                           
        220 GCAAATCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
         66 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT

                          *          
        285 CCACTGTGAAGTTTGTAGCTCTATT
        131 CCACTGTGAAGTTTTTAGCTC-ATT

            * *                              * *                             
        310 CGAAACACTTGTTTATTTTGGGCCTATCGGGGCTCGTTAGTTCCGTTTTGAATCGTCTTCGATTT
          1 TGGAACACTTG-TTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTT

                                                                             
        375 GGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAG
         65 GGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAG

                  *        *         
        440 TCCACTATGAAGTTTGTAGCTCATT
        130 TCCACTGTGAAGTTTTTAGCTCATT

                                                                             
        465 TGGAACACTTGTTATTTTGGGCCTATCGGGGCTCC-TTAGTTCCGTTTTGAATCGTCTTCGATTT
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGC-CCATTAGTTCCGTTTTGAATCGTCTTCGATTT

                                                                  *          
        529 GGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTAGTGAGATTAG
         65 GGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAG

                       *             
        594 TCCACTGTGAACTTTTTAGCTCATT
        130 TCCACTGTGAAGTTTTTAGCTCATT

                                       *                                     
        619 TGGAACACTTGTTATTTTGGGCCTATCTGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG

                     *                     *                                 
        684 GCAAACCTTAAAT-CTTTTCTTTCCATTGTTAATGGCCTAACTATAATCATTTTGGTGAGATTAG
         66 GCAAACC-TCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAG

                       *      *      
        748 TCCACTGTGAACTTTTTATCTCATT
        130 TCCACTGTGAAGTTTTTAGCTCATT

                                                    **   *                  *
        773 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTGACGTATTGAATCGTCTTCGATTTA
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG

                                                                             
        838 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
         66 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT

                *                   
        903 CCACGGTGAAGTTTTTAGCTCATT
        131 CCACTGTGAAGTTTTTAGCTCATT

                                  *    * *  *               *      * *       
        927 TGGAACACTTGTTATTTTGGGCTTATCTGTGCTCATTAGTTCCGTTTTCAATCGTATCCGATTTG
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG

                                          *                                  
        992 GCAAACCTCAATGCTTTTCTTTCCATTGTTAATGGCCTAACTATAATCATTTTGGTGAGATTAGT
         66 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT

                      *             
       1057 CCACTGTGAACTTTTTAGCTCATT
        131 CCACTGTGAAGTTTTTAGCTCATT

                                 *     *    **                               
       1081 TGGAACACTTGTTATTTTGGGTCTATCTGGGCTAATTAGTTCCGTTTTGAATCGTCTTCGATTTG
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG

                                             *  *                            
       1146 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATCGCGTAACTATAATCATTTTGGTGAGATTAGT
         66 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT

                      *             
       1211 CCACTGTGAAATTTTTAGCTCATT
        131 CCACTGTGAAGTTTTTAGCTCATT

                                        *         *                          
       1235 TGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAATTCCGTTTTGAATCGTCTTCGATTTG
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG

                                                *                *           
       1300 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCTTAACTATAATCATTTTTGTGAGATTAGT
         66 GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT

                          *  *      
       1365 CCACTGTGAAGTTTGTACCTCATT
        131 CCACTGTGAAGTTTTTAGCTCATT

            *                               *                                
       1389 CGGAACACTTGTTATTTTGGGCCTATCGGGGCTCATTAGTTCCGTTTTGAATCGTCTTCGATTTG
          1 TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG

                            *     
       1454 GCAAACCTCAATGCTTCTCTTT
         66 GCAAACCTCAATGCTTTTCTTT


Statistics
Matches: 1230,  Mismatches: 85, Indels: 12
        0.93            0.06        0.01

Matches are distributed among these distances:
 153    6  0.00
 154  1062  0.86
 155   29  0.02
 156  133  0.11

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


Consensus pattern (154 bp):   
TGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTG
GCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGT
CCACTGTGAAGTTTTTAGCTCATT

Done.