Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010350.1 Corchorus olitorius cultivar O-4 contig10382, 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: 3673
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33


Found at i:629 original size:333 final size:334

Alignment explanation


    Indices: 75--1222  Score: 883
    Period size: 333  Copynumber: 3.5  Consensus size: 334

         65 TGGTTAGTCT

                            *                                                
         75 ACGATTTCGGCTAAAATTTTGCAAAATATGACCAGAAAAGTATTTCCTCAATTTTTAGCAGAAAT
          1 ACGATTTCGGCTAAAAATTTGCAAAATATGACCAGAAAAGTATTTCCTCAATTTTTAGCAGAAAT

                        *        *                                   *    *  
        140 ACTCATGAAATATATATAATTGAACGCCAAAAAAATTGGAGGACTTTTCACGCTTTTTATATTGT
         66 ACTCATGAAATAAATATAATTCAACGCCAAAAAAATTGGAGGACTTTTCACGCTTTTAATATCGT

                          *                                                  
        205 TTTTCATATTTTTATGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACA
        131 TTTTCATATTTTTACGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACA

                       *                               *            *        
        270 AATCCTTAAATGCAATATAGCTGAGATTTGATTAGATGAATATGGAT-ATCTCAAGTAGTCTTAG
        196 AATCCTTAAATCCAATATAGCTGAGATTTGATTAGATGAATATAGATGAT-TCAAGGAGTCTT-G

                                 *                                           
        334 TGC-C-AAAAATCATGCAAAATTGACCCAAGCCCCTAGAACGCGTTTTTAGTCAAAAATCGTTAT
        259 -GCACTAAAAATCATGCAAAACTGACCCAAGCCCCTAGAACGCGTTTTTAGTCAAAAATCGTTAT

                        
        397 GATAATAATTAC
        323 GATAATAATTAC

                                       *       *             *       *       
        409 ACGATTTCGGCTAAAAATTTGCAAAATTTGACC-GGAAAGATATTTCCTTAATTTTTGGCTA-AA
          1 ACGATTTCGGCTAAAAATTTGCAAAATATGACCAGAAAAG-TATTTCCTCAATTTTTAGC-AGAA

                                      *        *    *   **    *              
        472 ATACTCAT-AAA-AAATATAATTCAATGCCAAAAATATTGTAGGGTTTTTTACGCTTTTAATATC
         64 ATACTCATGAAATAAATATAATTCAACGCCAAAAAAATTGGAGGACTTTTCACGCTTTTAATATC

                             *           *              *      *     *       
        535 GTTTTTTC-TAATTTTTCCGAATTAATTTTTAATTAAATCGAAATAAGATTTAGATGTTCGTAAA
        129 G-TTTTTCAT-ATTTTTACGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA

              *                 *                                *           
        599 AAGAAATCCTTAAATCCAATGT-GACTGAGATTTGATTAGATGAATATAGATGGTTCAAGGAGTC
        192 AACAAATCCTTAAATCCAATATAG-CTGAGATTTGATTAGATGAATATAGATGATTCAAGGAGTC

                                 *         ** *    *           *  *        **
        663 TTGGCACTAAAAATCATGCAATACTGACCCGGGGTCCC-GGAACGCGTTTTGA-CCAAAAA-CAA
        256 TTGGCACTAAAAATCATGCAAAACTGACCC-AAGCCCCTAGAACGCGTTTTTAGTCAAAAATCGT

            * **   **        * 
        725 AAAAACCCCATGATATTTC
        320 TATGA--TAAT-A-ATTAC

                          * *         *                *       * *        *  
        744 ACGATTTCGGCTAATATTTTGCAAAAAATGATCC-GAAATA-TTTTTCCTCTACTTTTAGCAAAA
          1 ACGATTTCGGCTAAAAATTTGCAAAATATGA-CCAGAAA-AGTATTTCCTCAATTTTTAGCAGAA

               * *                      *        * *  *   *        *   *     
        807 ATAGTTAT-AAA-AAGTATATAATTCAAAGCCAAAAAGACTGAAGGGCTTTTCACACTTCTAATA
         64 ATACTCATGAAATAA--ATATAATTCAACGCCAAAAAAATTGGAGGACTTTTCACGCTTTTAATA

            *                *                     *  *    *            *    
        870 CCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAAACGTAACATGATTCAGATGCTTGT--
        127 TCGTTTTTCATATTTTTAC-GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAA

                                   *    *      *                *    *  **   
        933 -----AA-----AAA--C-A-ATGGCTGGGATTTGGTTAGATGAATATAGA-AATTTAAAAAAGT
        191 AAACAAATCCTTAAATCCAATATAGCTGAGATTTGATTAGATGAATATAGATGA-TTCAAGGAGT

              *   * *         *         **  * *   *    *          * *    *   
        983 CTCGGCGCCAAAAATCATTCAAAA-TGAATC-GGGCCCAAGAATGCGTTTTTAGCCTAAAACCGT
        255 CTTGGCACTAAAAATCATGCAAAACTGACCCAAGCCCCTAGAACGCGTTTTTAGTCAAAAATCGT

            *              
       1046 GATG-T--TAATTAC
        320 TATGATAATAATTAC

                            *                 *                              
       1058 ACGATTTCGGCTAAAATTTTGC-AAATATTGACCCG-AAAGATATTTCCTCAATTTTTAGCA-AT
          1 ACGATTTCGGCTAAAAATTTGCAAAATA-TGACCAGAAAAG-TATTTCCTCAATTTTTAGCAGA-

            *               *                     *   *   *        * *       
       1120 GATACTCATAGAAA-ATATATAATT-AATCGCCAAAAATATTTGA-AAGCTTTTTGAAGCTTTTA
         63 AATACTCAT-GAAATAAATATAATTCAA-CGCCAAAAAAATTGGAGGA-C-TTTTCACGCTTTTA

                                 *                    
       1182 ATATCGTTTTTCATATTTTT-TGAATTAATTTCTAATTAAAT
        124 ATATCGTTTTTCATATTTTTACGAATTAATTTCTAATTAAAT

       1223 TCTTAAATGC


Statistics
Matches: 656,  Mismatches: 123, Indels: 91
        0.75            0.14        0.10

Matches are distributed among these distances:
 312    1  0.00
 313   30  0.05
 314   72  0.11
 315   30  0.05
 316    5  0.01
 318    5  0.01
 319   11  0.02
 320   10  0.02
 321   53  0.08
 322    2  0.00
 323    1  0.00
 325    3  0.00
 330    2  0.00
 331    5  0.01
 332   53  0.08
 333  152  0.23
 334   65  0.10
 335   59  0.09
 336   18  0.03
 337   79  0.12

ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34


Consensus pattern (334 bp):   
ACGATTTCGGCTAAAAATTTGCAAAATATGACCAGAAAAGTATTTCCTCAATTTTTAGCAGAAAT
ACTCATGAAATAAATATAATTCAACGCCAAAAAAATTGGAGGACTTTTCACGCTTTTAATATCGT
TTTTCATATTTTTACGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACA
AATCCTTAAATCCAATATAGCTGAGATTTGATTAGATGAATATAGATGATTCAAGGAGTCTTGGC
ACTAAAAATCATGCAAAACTGACCCAAGCCCCTAGAACGCGTTTTTAGTCAAAAATCGTTATGAT
AATAATTAC
Done.