Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007785.1 Corchorus capsularis cultivar CVL-1 contig07806, 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: 1817
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33


Found at i:1385 original size:332 final size:333

Alignment explanation


    Indices: 137--1817  Score: 2336
    Period size: 333  Copynumber: 5.1  Consensus size: 333

        127 AAAAACCCGA

                                            *     *       *                  
        137 GCTAAAATTTTGCAAAAATTGACCCGAAAAATATTTCCACAATTTTGGGCCAGAATACTCATAAA
          1 GCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGCCAGAATACTCAT-AA

                                                   *                      ** 
        202 AAAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTGCACGCTTCTAATATCGATTTTCAAA
         65 AAAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCACGCTTCTAATATCGATTTTCCTA

                     *              *              *                         
        267 TATTTTTCCTAATTAATTTCTCATCAAATCGTTA-AC-TTATTCTCATGCTCGTCAAATCAAATC
        130 TATTTTTCCGAATTAATTTCTCATTAAATCG--ACACATGATTCTCATGCTCGTCAAATCAAATC

            *                             *   *                  *           
        330 TTTAAATCCATTGTGGCTGAGATTTTGTTACATGAATATAGATATTTCAATGACTCTTGGCGCAA
        193 CTTAAATCCATTGTGGCTGAGATTTTGTTAGATGTATATAGATATTTCAATGAGTCTTGGCGCAA

               *                        *                                    
        395 AAACTCATGCAAAACTGAACCGGAGCACTGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGT
        258 AAAATCATGCAAAACTGAACCGGAGCACCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGT

             *       * 
        460 ATACGATTTGG
        323 ACACGATTTCG

                  *               *     *    *   *                *   *      
        471 GCTAAACTTTTGCAAAAATTGATCCGAAGAATTATTCTTCAATTTTTGGCCAGAGTACGCATAAA
          1 GCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGCCAGAATACTCATAAA

            **                                    *                *         
        536 TGATATATAATTCAACGCCAAAAAGATTGATGGGCTTTCCACGCTT-TAAATATCCATTTTCCTA
         66 AAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCACGCTTCT-AATATCGATTTTCCTA

                               *                                     *       
        600 TATTTTTCCGAATTAATTTTTCATTAAATCGACACATGATTCTCATGCTCGTCAAATTAAATCCT
        130 TATTTTTCCGAATTAATTTCTCATTAAATCGACACATGATTCTCATGCTCGTCAAATCAAATCCT

                                                      *             *        
        665 TAAATCCATTGTGGCTGAGATTTTGTTAGATGTATATAGATACTTCAATGAGTCTTTGCGCAAAA
        195 TAAATCCATTGTGGCTGAGATTTTGTTAGATGTATATAGATATTTCAATGAGTCTTGGCGCAAAA

                                           *                            *    
        730 AATCATGCAAAACTGAACCGGAGCACCAGG-TCGCATTTTTAGCCAAAAACCGTGATGGTAAGTA
        260 AATCATGCAAAACTGAACCGGAGCACC-GGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTA

            *         
        794 TACGATTTCG
        324 CACGATTTCG

                                  **               *             *           
        804 GCTAAAATTTTGCAAAAATTGAGTC-AAAAATTTTTACCACAATTTTTGGCCATAATACTCATAA
          1 GCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTT-CCTCAATTTTTGGCCAGAATACTCATAA

                                                             *               
        868 AAAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCACGCTTCTTATATCGATTTTCCTA
         65 AAAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCACGCTTCTAATATCGATTTTCCTA

                    *            *  *          *                             
        933 TATTTTTCTGAATTAATTTCTGATGAAATCGACACCTGATTCTCATGCTCGTCAAATCAAATCCT
        130 TATTTTTCCGAATTAATTTCTCATTAAATCGACACATGATTCTCATGCTCGTCAAATCAAATCCT

                                                                             
        998 TAAATCCATTGTGGCTGAGATTTTGTTAGAT-TAATATAGATATTTCAATGAGTCTTGGCGCAAA
        195 TAAATCCATTGTGGCTGAGATTTTGTTAGATGT-ATATAGATATTTCAATGAGTCTTGGCGCAAA

              *                  *    *                        **  *     *   
       1062 AAGTCATGCAAAACTGAACCGAAGCATCGGAACGCATTTTTAGCCAAAAACTATGCTGGTTTGTA
        259 AAATCATGCAAAACTGAACCGGAGCACCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTA

                    * 
       1127 CACGATTTGG
        324 CACGATTTCG

                        *     *                              *  *   *        
       1137 GCTAAAATTTTGAAAAAACTGACCCGAAAAATTTTTCCTCAATTTTTGGACAAAATTCTCATAAA
          1 GCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGCCAGAATACTCATAAA

            *        *          *      *              *           *          
       1202 TAATATAT-TTATCAACG-CTAAAAGACTGATGGGCTTTTCAGGCTTCTAATATTGATTTTCCTA
         66 AAATATATAAT-TCAACGCCAAAAAGATTGATGGGCTTTTCACGCTTCTAATATCGATTTTCCTA

                               *       *                             *    *  
       1265 TATTTTTCCGAATTAATTTTTCATTAAGTCGACACATGATTCTCATGCTCGTCAAATTAAATTCT
        130 TATTTTTCCGAATTAATTTCTCATTAAATCGACACATGATTCTCATGCTCGTCAAATCAAATCCT

                                                      *     *                
       1330 TAAATCCATTGTGGCTGAGATTTTGTTAGATGTATATAGATACTTCAACGAGTCTTGGCGCAAAA
        195 TAAATCCATTGTGGCTGAGATTTTGTTAGATGTATATAGATATTTCAATGAGTCTTGGCGCAAAA

                          *              *                               *   
       1395 AATCATGCAAAACTTAACCGGAGCACCGGGACGCATTTTTAGCCAAAAAACCGTGA-----CGTA
        260 AATCATGCAAAACTGAACCGGAGCACCGGAACGCATTTTTAGCC-AAAAACCGTGATGGTTAGTA

                      
       1455 CACGATTTCG
        324 CACGATTTCG

                                    **                     **                
       1465 GCTAAAATTTTGCAAAAATTGACCAAAAAAATTTTTCCTCAATTTTTTTCCAGAATACTCATAAA
          1 GCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGCCAGAATACTCATAAA

                                        *              *                     
       1530 AAATATATAATTCAACGCCAAAAAGATTAATGGGCTTTTCACGTTTCTAATATCGATTTTCC--T
         66 AAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCACGCTTCTAATATCGATTTTCCTAT

                                              *       *      * *             
       1593 ATTTTTCCGAATTAATTTCTCATTAAATCGACACCTGATTCTAATGCTCATGAAATCAAATCCTT
        131 ATTTTTCCGAATTAATTTCTCATTAAATCGACACATGATTCTCATGCTCGTCAAATCAAATCCTT

                     *                                                       
       1658 AAATCCATTTTGGCTGAGATTTTGTTAGAT-TAATATAGATATTTCAATGAGTCTTGGCGCAAAA
        196 AAATCCATTGTGGCTGAGATTTTGTTAGATGT-ATATAGATATTTCAATGAGTCTTGGCGCAAAA

             *                  *    *                        *         *    
       1722 AGTCATGCAAAACTGAACCGAAGCATCGGAACGCATTTTTAGCCAAAAACTGTGATGGTTTGTAC
        260 AATCATGCAAAACTGAACCGGAGCACCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTAC

                   * 
       1787 ACGATTTAG
        325 ACGATTTCG

                              *     
       1796 GCTAAAA--TTGCAAAAACTGACC
          1 GCTAAAATTTTGCAAAAATTGACC


Statistics
Matches: 1189,  Mismatches: 138, Indels: 45
        0.87            0.10        0.03

Matches are distributed among these distances:
 326   11  0.01
 327  156  0.13
 328   81  0.07
 329   53  0.04
 331   20  0.02
 332  213  0.18
 333  590  0.50
 334   65  0.05

ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33


Consensus pattern (333 bp):   
GCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGCCAGAATACTCATAAA
AAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCACGCTTCTAATATCGATTTTCCTAT
ATTTTTCCGAATTAATTTCTCATTAAATCGACACATGATTCTCATGCTCGTCAAATCAAATCCTT
AAATCCATTGTGGCTGAGATTTTGTTAGATGTATATAGATATTTCAATGAGTCTTGGCGCAAAAA
ATCATGCAAAACTGAACCGGAGCACCGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACA
CGATTTCG
Done.