Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011572.1 Corchorus olitorius cultivar O-4 contig11605, 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, 846

Length: 1411
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23


Found at i:641 original size:154 final size:154

Alignment explanation


    Indices: 7--1411  Score: 2026
    Period size: 154  Copynumber: 9.1  Consensus size: 154

          1 ATAGGG

                     *    *                                                  
          7 CCAAAATAAAAAGTCTTCCAAATGAGCTAAAAACTTCACAGTGGAC-TAATCTCACCAAAATGAT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACAT-ATCTCACCAAAATGAT

                                              * *                    *       
         71 TATAGTTAGGCCATAAACAATGGAAAG-AAAGCCATCGAAGG-TTGCCAAATCGAAGACGATTCA
         65 TATAGTTAGGCCATAAACAATGGAAAGAAAAG-CTTTG-AGGTTTGCCAAATCGAAGTCGATTCA

              *  **        *      *    
        134 AAGCGTCACTAATGGTCCCCGATAGGC
        128 AAACGGAACTAATGGGCCCCGAAAGGC

                                                                   *         
        161 CCAAAATAACAA-TGTTCCAAATGAGCT-AAAACATTCACAGTGGACATATCTCATCAAAATGAT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAAC-TTCACAGTGGACATATCTCACCAAAATGAT

                                                                             
        224 TATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTG-CAAATCGAAGTCGATTCAAA
         65 TATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAA

                 *     *     *       
        288 ACGGATCTAATCGGCCCTGAAAGGC
        130 ACGGAACTAATGGGCCCCGAAAGGC

             *                     *         *                     *         
        313 CAAAAATAACAAGTGTTCCAAATCAGCTAAAAATTTCACAGTGGAC-TAATCTCAGCAAAATGAT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACAT-ATCTCACCAAAATGAT

                    *     *    *                         *                   
        377 TATAGTTACGCCATCAACAGTGGAAAGAAAAGCTTT-AGGTTTGCTAAATCGAAGTCGATTCAAA
         65 TATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAA

                *                    
        441 ACGGTACTAATGGGCCCCGAAAGGC
        130 ACGGAACTAATGGGCCCCGAAAGGC

                        *          *                                         
        466 CCAAAATAACAATTGTTCCAAATAAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATT

                                                                             
        531 ATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAA
         66 ATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAA

                            *       
        596 CGGAACTAATGGGCCCAGAAAGGC
        131 CGGAACTAATGGGCCCCGAAAGGC

                                             *                               
        620 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAATTTCACAGTGGACATATCTCACCAAAATGATT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATT

                    **           *                        *                  
        685 ATAGTTAGTTCATAAACAATGTAAAGAAAAGCTTTGAGGTTTGCCATATCGAAGTCGATTCAAAA
         66 ATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAA

            *  *       *            
        750 TGGTACTAATGAGCCCCGAAAGGC
        131 CGGAACTAATGGGCCCCGAAAGGC

             *                               *                     *         
        774 CTAAAATAACAAGTGTTCCAAATGAGCTAAAAATTTCACAGTGGAC-TAATCTCAGCAAAATGAT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACAT-ATCTCACCAAAATGAT

                                     *          *        *  *                
        838 TATAGTTAGGCCATAAACAATGGAACGAAAAGCTTTTAGGTTTGCTAACTCGAAGTCGATTCAAA
         65 TATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAA

                *                    
        903 ACGGTACTAATGGGCCCCGAAAGGC
        130 ACGGAACTAATGGGCCCCGAAAGGC

                   *                  *                        *  *          
        928 CCAAAATGACAAGTGTTCCAAATGAGATAAAAA-TCTCACAGTGGACATATTTCTCCAAAATGAT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACT-TCACAGTGGACATATCTCACCAAAATGAT

                                                *                 *  *       
        992 TATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTTAGGTTTGCCAAATCGAAATCTATTCAAA
         65 TATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAA

                            **       
       1057 ACGGAACTAATGGGCCAGGAAAGGC
        130 ACGGAACTAATGGGCCCCGAAAGGC

                                      *      *        *  *          *        
       1082 CCAAAATAACAAGTGTTCCAAATGAGTTAAAAATTTCACAGTTGATATATCTCTA-AAAAATGAT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACATATCTC-ACCAAAATGAT

              *          *   *                  *                 *  *       
       1146 TAAAGTTAGGCCAAAAATAATGGAAAGAAAAGCTTTTAGGTTTGCCAAATCGAAATCTATTCAAA
         65 TATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAA

                                     
       1211 ACGGAACTAATGGGCCCCGAAAGGC
        130 ACGGAACTAATGGGCCCCGAAAGGC

                                                                             
       1236 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATT
          1 CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATT

                    **                                                       
       1301 ATAGTTAGTTCATAAACAATGGAAAG-AAAG-TTTGAGGTTTGCCAAATCGAAGTCGATTCAAAA
         66 ATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAA

                                      
       1364 CGGATACTAATGGGACCCCGAAAGGC
        131 CGGA-ACTAATGGG-CCCCGAAAGGC

              *    *    *         
       1390 CCCAAATTACAATTGTTCCAAA
          1 CCAAAATAACAAGTGTTCCAAA


Statistics
Matches: 1131,  Mismatches: 102, Indels: 36
        0.89            0.08        0.03

Matches are distributed among these distances:
 152   97  0.09
 153  294  0.26
 154  738  0.65
 155    2  0.00

ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23


Consensus pattern (154 bp):   
CCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACATATCTCACCAAAATGATT
ATAGTTAGGCCATAAACAATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGTCGATTCAAAA
CGGAACTAATGGGCCCCGAAAGGC

Done.