Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020734.1 Corchorus olitorius cultivar O-4 contig20767, 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, 840

Length: 1400
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33


Found at i:986 original size:329 final size:324

Alignment explanation


    Indices: 386--1398  Score: 1152
    Period size: 329  Copynumber: 3.1  Consensus size: 324

        376 TTTGTAACGT

                                   *   *        *        *  *        *   *   
        386 TAAAGATATTTCAAGGAGTCTTGACACCAAAAATCAAGCAAAACTAAGCCGGGATCCAAGAACGC
          1 TAAAGATATTTCAAGGAGTCTTGGCACAAAAAATCATGCAAAACTGAGGCGGGA-CCCAGAGCGC

                               *  *         *    **                          
        451 ATTTTTAGCCAAAAACCATTAACGTACAGGACTTCGGGCTTCGGCTAAAATTTTTGAAAAAACTG
         65 ATTTTTAGCCAAAAACCATGAAGGTAC---ACAT--GATTTCGGCTAAAATTTTTGAAAAAACTG

                                  *                                    *    *
        516 ACCC-AAAAATTTTTTCCTCCATTTTTTGCCACAATACTCACAAAAATATATAATTCAACGCCAG
        125 ACCCGAAAAA-TTTTTCCT-CAATTTTTGCCACAATACTCACAAAAATATATAATTCAATGCCAA

                          **       *   *                               *  *  
        580 AAAGATTGAAGGTTTTTTTTCGCACTTTTAATATCGTTTTTCAAATTTTT----TT--TCCAAAA
        188 AAAGATTGAAGG--ACTTTTCGCGCTTCTAATATCGTTTTTCAAATTTTTCAAATTAATTC-TAA

                                                                  *     *    
        639 CTAAATCGAAACATGATTCAGACGTTCGCAAAAACAAATCCTTAAATCCATTGCAGCTGAAATTT
        250 CTAAATCGAAACATGATTCAGA-GTTCGCAAAAACAAATCCTTAAATCCATTGCGGCTGAGATTT

                       
        704 GATTAGATGAA
        314 GATTAGATGAA

                                       *                         *           
        715 TAAAGATATTTCAAGGAGTCTTGGCACTAAAAATCATGCAAAACTGAGGCGGGCCCCAGAGCGCA
          1 TAAAGATATTTCAAGGAGTCTTGGCACAAAAAATCATGCAAAACTGAGGCGGGACCCAGAGCGCA

                                *       *                            *       
        780 TTTTTAGCC-AAAACCATGATGGTTACATATGATTTCGGCTAAAATTTTTGAAAAAATTGACCCG
         66 TTTTTAGCCAAAAACCATGAAGG-TACACATGATTTCGGCTAAAATTTTTGAAAAAACTGACCCG

                  *      *                 * * *                             
        844 AAAAATATTTCCTTAATTTTTGACCACAATATTTATAGAAAATATATAATTCAATGCCAAAAAGA
        130 AAAAATTTTTCCTCAATTTTTG-CCACAATACTCACA-AAAATATATAATTCAATGCCAAAAAGA

                   *                   *                               *     
        909 TTGAAGGGCTTTTCGCGCTTCTAATATTGTTTTTCAAATTTTTCCAAATTAAATTCTAATTAAAT
        193 TTGAAGGACTTTTCGCGCTTCTAATATCGTTTTTCAAATTTTT-CAAATT-AATTCTAACTAAAT

             *   *                                                           
        974 CAAAATATGATTCAGATGCTT-GCAAAAACAAATCCTTAAATCCATTGCGGCTGAGATTTGCA-T
        256 CGAAACATGATTCAGA-G-TTCGCAAAAACAAATCCTTAAATCCATTGCGGCTGAGATTTG-ATT

                   
       1037 AGATGAA
        318 AGATGAA

                                                 *                   *       
       1044 TAAAGATATTTCAAGGAGTCTTGGCACAAAAAATCATTCAAAACTGA-GCTGGAGACACAGAGCG
          1 TAAAGATATTTCAAGGAGTCTTGGCACAAAAAATCATGCAAAACTGAGGC-GG-GACCCAGAGCG

                    *       *  *   *     *         **                        
       1108 CATTTTTATCCAAAAATCACGAGGGGTAGTACATGATTTTAGCTAAAATTTTTG-AAAAACTGAC
         64 CATTTTTAGCCAAAAACCATGA-AGGTA-CACATGATTTCGGCTAAAATTTTTGAAAAAACTGAC

                *  **                                                        
       1172 CCGGGAATTTTTTTCCTCAATTTTTTGCCACAATACTCACAAAAAATATATAATTCAATGCCAAA
        127 CC-GAAAAATTTTTCCTCAA-TTTTTGCCACAATACTCAC-AAAAATATATAATTCAATGCCAAA

                     *        *      *                                       
       1237 AAGATTGAATGACTTTTCACGCTTCAAATATCGTTTTTCAAGATTTTTTTCAAATTAATTTCTAA
        189 AAGATTGAAGGACTTTTCGCGCTTCTAATATCGTTTTTCAA-A--TTTTTCAAATTAA-TTCTAA

                              *    *                                         
       1302 CTAAATCGAAACATGATTTAGAGCTCGCAAAAACAAATCCTTAAATCCATTGCGGCTGAGATTTG
        250 CTAAATCGAAACATGATTCAGAGTTCGCAAAAACAAATCCTTAAATCCATTGCGGCTGAGATTTG

            *         
       1367 GTTAGATGAA
        315 ATTAGATGAA

                                   
       1377 TAAAGATA-TTCAAGGAGTCTTG
          1 TAAAGATATTTCAAGGAGTCTTG

       1399 CA


Statistics
Matches: 587,  Mismatches: 69, Indels: 53
        0.83            0.10        0.07

Matches are distributed among these distances:
 322   38  0.06
 323   48  0.08
 324   37  0.06
 325    2  0.00
 327   12  0.02
 328   23  0.04
 329  162  0.28
 330   24  0.04
 331   21  0.04
 332  119  0.20
 333   66  0.11
 334   30  0.05
 335    5  0.01

ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31


Consensus pattern (324 bp):   
TAAAGATATTTCAAGGAGTCTTGGCACAAAAAATCATGCAAAACTGAGGCGGGACCCAGAGCGCA
TTTTTAGCCAAAAACCATGAAGGTACACATGATTTCGGCTAAAATTTTTGAAAAAACTGACCCGA
AAAATTTTTCCTCAATTTTTGCCACAATACTCACAAAAATATATAATTCAATGCCAAAAAGATTG
AAGGACTTTTCGCGCTTCTAATATCGTTTTTCAAATTTTTCAAATTAATTCTAACTAAATCGAAA
CATGATTCAGAGTTCGCAAAAACAAATCCTTAAATCCATTGCGGCTGAGATTTGATTAGATGAA

Done.