Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013550.1 Corchorus olitorius cultivar O-4 contig13583, 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, 905

Length: 1509
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32


Found at i:1207 original size:334 final size:333

Alignment explanation


    Indices: 459--1509  Score: 1571
    Period size: 335  Copynumber: 3.2  Consensus size: 333

        449 GAAAACAATG

                       *                   *               *  *              
        459 TAAAATACTCAAAAAATATATATAATTTAACACCAAAAAGATTGGAGAACATTTCACGCTTTTAA
          1 TAAAATACTCATAAAATATATATAATTTAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAA

                                                                       *     
        524 TATCGTTTTTCATATTTTTTCTGAATTAA-TTCTAATTAAATCGAAACAAGATTCAAATGCTCGT
         66 TATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATTCTCGT

                                           *                                 
        588 AAAAACAAATCCTTAAATGCAATGTGGCTAAGTTTTTATTAGATGAATATAGATATTTCAAGGAG
        131 AAAAACAAATCCTTAAATGCAATGTGGCTAACTTTTTATTAGATGAATATAGATATTTCAAGGAG

                 *                             *    *             *          
        653 TCTTGACGCCAAAAATCATGCAAAACTGAGCCGGGTCCCCAAAACGCGTTTTTATCCAAAAACCG
        196 TCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAACCAAAAACCG

                                                                        *    
        718 TGATGGTTAGTACACGAATTTGGCTAAAATTTAGCAAAAAATGACCGCGAAAAATTTTATCCTCA
        261 TGATGGTTAGTACACGAATTTGGCTAAAATTTAGCAAAAAATGACCGCGAAAAATTTT-TGCTCA

             *       
        783 AATTTTGGA
        325 ATTTTTGGA

                                          *       *            *  *          
        792 TAAAATACTCATAAAATATATATAATTTAATGCCAAAAGGATTGGAGTG-CGTTACACGCTTTTA
          1 TAAAATACTCATAAAATATATATAATTTAACGCCAAAAAGATTGGAG-GACTTTTCACGCTTTTA

                *               *            *         *                     
        856 ATATTGTTTTTCATATTTTTACTGAATTAATTTTTAATTAAATTGAAACAAGATTCAAATTCTCG
         65 ATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATTCTCG

                                                                             
        921 TAAAAACAAATCCTTCAAATGCAATGTGGCTAACTTTTTATTAGATGAATATAGATATTTCAAGG
        130 TAAAAACAAATCCTT-AAATGCAATGTGGCTAACTTTTTATTAGATGAATATAGATATTTCAAGG

                                  *                                 *    *  *
        986 AGTCTTGGCGCCAAAAATCATGTAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCAATAAG
        194 AGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAACCAAAAAC

                               *   *  *       *           *                  
       1051 CGTGATGGTTAGTACACGAGTTTAGCAAAAATTTTGCAAAAAATGAGCGCGAAAAATTTTTGCTC
        259 CGTGATGGTTAGTACACGAATTTGGCTAAAATTTAGCAAAAAATGACCGCGAAAAATTTTTGCTC

                      
       1116 AATTTTTGGA
        324 AATTTTTGGA

                         *   *                     *                   **    
       1126 TAAAATACTCATATAATTTATATAATTTAACGCCAAAAATATTGGAGGACTTTTCACGCAATTAA
          1 TAAAATACTCATAAAATATATATAATTTAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAA

                                                                         *   
       1191 TATCGTTTTTCATATTTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATTTTCG
         66 TATCGTTTTTCATA-TTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATTCTCG

                                                 *                         * 
       1256 TAAAAACAAATCCTTAAATGCAATGTGGCTAACTTTTCATTAGATG-----A-ATATTTCAAGTA
        130 TAAAAACAAATCCTTAAATGCAATGTGGCTAACTTTTTATTAGATGAATATAGATATTTCAAGGA

                                           *          *  *      *            
       1315 GTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGGAATGCGTTTATAACCAAAAACC
        195 GTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAACCAAAAACC

                          **                                           *     
       1380 GTGATGGTTAGTACGTGAATTTGGCTAAAATTTAGCAAAAAATGACCGCGAAAAATTTTGGCTCA
        260 GTGATGGTTAGTACACGAATTTGGCTAAAATTTAGCAAAAAATGACCGCGAAAAATTTTTGCTCA

                     
       1445 ATTTTTGGA
        325 ATTTTTGGA

                         *   *                      *                
       1454 TAAAATACTCATATAATTTATAT-ATTTAACGCCTAAAAATATTGGAGGACTTTTCA
          1 TAAAATACTCATAAAATATATATAATTTAACGCC-AAAAAGATTGGAGGACTTTTCA


Statistics
Matches: 653,  Mismatches: 59, Indels: 17
        0.90            0.08        0.02

Matches are distributed among these distances:
 327   10  0.02
 328  179  0.27
 329    1  0.00
 333   85  0.13
 334  156  0.24
 335  222  0.34

ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33


Consensus pattern (333 bp):   
TAAAATACTCATAAAATATATATAATTTAACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAA
TATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAAATTCTCGT
AAAAACAAATCCTTAAATGCAATGTGGCTAACTTTTTATTAGATGAATATAGATATTTCAAGGAG
TCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAACCAAAAACCG
TGATGGTTAGTACACGAATTTGGCTAAAATTTAGCAAAAAATGACCGCGAAAAATTTTTGCTCAA
TTTTTGGA

Done.