Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010992.1 Corchorus olitorius cultivar O-4 contig11024, 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, 1000

Length: 1856
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41


Found at i:554 original size:154 final size:153

Alignment explanation


    Indices: 2--1856  Score: 2782
    Period size: 153  Copynumber: 12.1  Consensus size: 153

          1 A

                            *       *         *       *                      
          2 GCCCATTAGTGTCGTTCTGAATCGCCTTCGATTTAGAAACCTAAATGCTTTTCTTTCCATTGTTT
          1 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTGGAAACCTCAATGCTTTTCTTTCCATTGTTT

                    *                                *          *            
         67 ATGGCCTACCTATAATCATTTTGGTGAGATTAGTCCACTGTAAAGTTTTTAGGTCATTTGGAACA
         66 ATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACA

                        *     *    
        132 CTTGTTATTTTGAGCCTACCGGG
        131 CTTGTTATTTTGGGCCTATCGGG

                            *                   *                            
        155 GCCCATTAGTGTCGTTATGAATCGTCTTCGATTTGGTAACCTCAATGCTTTTCTTTCCATTGTTT
          1 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTGGAAACCTCAATGCTTTTCTTTCCATTGTTT

                        *                                                    
        220 ATGGCCTAACTAAAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACA
         66 ATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACA

                       *     *     
        285 CTTGTTATTTTAGGCCTTTCGGG
        131 CTTGTTATTTTGGGCCTATCGGG

                              *       *             *    *                   
        308 G-CCATTAGT-TCCGTTTGGAATCGTATTCGATTTGGCAACCCTCGATGCTTTTCTTTCCATTGT
          1 GCCCATTAGTGT-CGTTTTGAATCGTCTTCGATTTGG-AAACCTCAATGCTTTTCTTTCCATTGT

                              *                                              
        371 TTATGGCCTAACTATAATAATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA
         64 TTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA

                                     
        436 CACTTGTTATTTTGGGCCTATCGGG
        129 CACTTGTTATTTTGGGCCTATCGGG

                                                                             
        461 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTGAGAAACCTCAATGCTTTTCTTTCCATTGTT
          1 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTG-GAAACCTCAATGCTTTTCTTTCCATTGTT

                          *        *               *                         
        526 TATGGCCTAACTATTATCATTTTCGTGAGATTAGTCCACAGTGAAGTTTTTAGCTCATTTGGAAC
         65 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC

             *                      
        591 AATTGTTATTTTGGGCCTATCGGG
        130 ACTTGTTATTTTGGGCCTATCGGG

                      *     *                                                
        615 GCCCATTAGTTTCGTTCTGAATCGTCTTCGATTTGGGAAACCTCAATGCTTTTCTTTCCATTGTT
          1 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTT-GGAAACCTCAATGCTTTTCTTTCCATTGTT

                                    *                                        
        680 TATGGCCTAACTATAATCATTTTGCTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC
         65 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC

                                    
        745 ACTTGTTATTTTGGGCCTATCGGG
        130 ACTTGTTATTTTGGGCCTATCGGG

                *      *      *          *                                *  
        769 GCCCGTTAGTGACGTTTTAAATCGTCTTCAATTTGGCAAACCTC-ATGCTTTTCTTTCCATTATT
          1 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTGG-AAACCTCAATGCTTTTCTTTCCATTGTT

                              *                                          *   
        833 TATGGCCTAACTATAATCCTTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTTCATTTAGAA
         65 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGC-TCATTTGGAA

                         *     *     
        898 CACTTGTTATTTTAGGCCTTTCGGG
        129 CACTTGTTATTTTGGGCCTATCGGG

                                                    *    *                   
        923 GCCCATTAGT-TCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCGATGCTTTTCTTTCCATTGT
          1 GCCCATTAGTGT-CGTTTTGAATCGTCTTCGATTTGG-AAACCTCAATGCTTTTCTTTCCATTGT

                  *                  * *                         *           
        987 TTATGGGCTAACTATAATCA-TTTGCTAAGATTAGTCCACTGTGAAG-TTTTAACTCATTTGGAA
         64 TTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAA

                                     
       1050 CACTTGTTATTTTGGGCCTATC-GG
        129 CACTTGTTATTTTGGGCCTATCGGG

                         *   *                            *                  
       1074 G-CCAGCTTAGTGACGTATTGAATCGTCTTCGATTTGGCAAACCTCTATGC-TTTCTTTCCATTG
          1 GCCCA--TTAGTGTCGTTTTGAATCGTCTTCGATTTGG-AAACCTCAATGCTTTTCTTTCCATTG

                                                        *          *         
       1137 TTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTAAAG-TTTTAGGTCATTTGGA
         63 TTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGA

             *             *          
       1201 AAACTTGTTATTTTGTGCCTATCGGG
        128 ACACTTGTTATTTTGGGCCTATCGGG

                            *                   *                            
       1227 GCCCATTAGTGTCGTTATGAATCGTCTTCGATTTGGTAACCTCAATGCTTTTCTTTCCATTGTTT
          1 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTGGAAACCTCAATGCTTTTCTTTCCATTGTTT

                    *                                           *            
       1292 ATGGCCTACCTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGGTCATTTGGAACA
         66 ATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACA

                        *          
       1357 CTTGTTATTTTGTGCCTATCGGG
        131 CTTGTTATTTTGGGCCTATCGGG

                            *                   *                            
       1380 GCCCATTAGTGTCGTTATGAATCGTCTTCGATTTGGTAACCTCAATGCTTTTCTTTCCATTGTTT
          1 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTGGAAACCTCAATGCTTTTCTTTCCATTGTTT

                    *                                                  *     
       1445 ATGGCCTACCTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTTGAACA
         66 ATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACA

                       *     *     
       1510 CTTGTTATTTTAGGCCTTTCGGG
        131 CTTGTTATTTTGGGCCTATCGGG

                              *       *             *    *  *     *        * 
       1533 G-CCATTAGT-TCCGTTTGGAATCGTATTCGATTTGGCAACCCTCGATACTTTTGTTTCCATTTT
          1 GCCCATTAGTGT-CGTTTTGAATCGTCTTCGATTTGG-AAACCTCAATGCTTTTCTTTCCATTGT

                   *                                                         
       1596 TTATGGCATAACTATAATCATTTTGGTGAGATTAGTCCA-TCGTGAAGTTTTTAGCTCATTTGGA
         64 TTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACT-GTGAAGTTTTTAGCTCATTTGGA

                         *            
       1660 ACACTTGTTATTTCGGGCCTATCGGG
        128 ACACTTGTTATTTTGGGCCTATCGGG

                                                                             
       1686 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTGAGAAACCTCAATGCTTTTCTTTCCATTGTT
          1 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTG-GAAACCTCAATGCTTTTCTTTCCATTGTT

              *         * *                     *               *            
       1751 TAAGGCCTAACTCTTATCATTTTGGTGAGATTAGTCTACTGTGAAGTTTTTAACTCATTTGGAAC
         65 TATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAAC

                            *    ** 
       1816 ACTTGTTATTTTGGGCGTATCAAG
        130 ACTTGTTATTTTGGGCCTATCGGG

            *          *     
       1840 ACCCATTAGTGACGTTT
          1 GCCCATTAGTGTCGTTT


Statistics
Matches: 1553,  Mismatches: 124, Indels: 49
        0.90            0.07        0.03

Matches are distributed among these distances:
 150    3  0.00
 151   48  0.03
 152  272  0.18
 153  628  0.40
 154  560  0.36
 155   42  0.03

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


Consensus pattern (153 bp):   
GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTTGGAAACCTCAATGCTTTTCTTTCCATTGTTT
ATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACA
CTTGTTATTTTGGGCCTATCGGG

Done.