Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015214.1 Corchorus olitorius cultivar O-4 contig15247, 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: 2461
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38


Found at i:1442 original size:333 final size:334

Alignment explanation


    Indices: 754--1621  Score: 1027
    Period size: 333  Copynumber: 2.6  Consensus size: 334

        744 CGACCAATCA

                                                  *           *  *           
        754 ATTTGGTTAGATGGATATAGATATTTCAATGAGACTTGGCGCCAAAAATCGTGTAAAACAGAGCC
          1 ATTTGGTTAGATGGATATAGATATTTCAATGAGACTTGACGCCAAAAATCATGCAAAACAGAGCC

            *        *                        *                   *          
        819 GGGGCTCCGGAACGCGTTTTTAGTC-AAAACCGTTATGGTTAGTACACGATTTCAGCTAAAATTT
         66 AGGGCT-CGAAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTT

                             *                      *      *   *             
        883 TGCAAAAATTGACCCAAGAAATTTTTCCTCAATTTACGGCCACCATATTCTTTAAAAATATATAA
        130 TGCAAAAATTGACCCAAAAAATTTTTCCTCAATTTACGGCAACCATACTCTATAAAAATATATAA

                 **       *      * *                   *                     
        948 CTCAACGTCAAAAATATTGAAGGGCTTCTCACGCTTCTAATATTGTTTTTTATTCATATTTTTTC
        195 CTCAAAATCAAAAAGATTGAAAGCCTTCTCACGCTTCTAATATCG-TTTTTATTCATATTTTTTC

            *         *                *     *                               
       1013 TGAATTAATTTCTAATTCAATCGAAACCGGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCA
        259 CGAATTAATTCCTAATTCAATCGAAACAGGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCA

                    *  
       1078 ATGTGGCTGAG
        324 ATGTGGCTAAG

                *   *   **                   *                         *     
       1089 ATTTTGTTTGATAAATATAGATATTTCAATGAGTCTTGACGCCAAAAATCATGCAAAACTGAGCC
          1 ATTTGGTTAGATGGATATAGATATTTCAATGAGACTTGACGCCAAAAATCATGCAAAACAGAGCC

                                   *             *               *           
       1154 AGGGCTACGAAACGCGTTTTTAGCCAAAAACCGTGATAGTTAGTACACGATTTTGGCTAAAGATT
         66 AGGGCT-CGAAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAA-ATT

               *                                 **      *  *                
       1219 TTGTAAAAATTGACCCAAAAGAATTTTTCC-CAATTTTTGGCAACGATGCTC-ATAGAAAATATA
        129 TTGCAAAAATTGACCCAAAA-AATTTTTCCTCAATTTACGGCAACCATACTCTATA-AAAATATA

               *                                                             
       1282 TAATTCAAAATCAAAAAGATTGAAAGCCTAT-TCACGCTTCTAATATCG-TTTT-TTC-TATTTT
        192 TAACTCAAAATCAAAAAGATTGAAAGCCT-TCTCACGCTTCTAATATCGTTTTTATTCATATTTT

                                *          *      *   * *  *             *   
       1343 TTCCGAATTAATTCCTAATTGAATCGAAACATGATTCATATGTTGGTGAAAACAAATCCTTGAAT
        256 TTCCGAATTAATTCCTAATTCAATCGAAACAGGATTCAGATGCTCGTAAAAACAAATCCTTAAAT

                     *    
       1408 CCAATGTGGGTAAG
        321 CCAATGTGGCTAAG

                                                             *               
       1422 ATTTGGTTAGATGGATATAGATATTTCAATGAGACTT-AGCGCCAAAAAACATGCAAAACAGAG-
          1 ATTTGGTTAGATGGATATAGATATTTCAATGAGACTTGA-CGCCAAAAATCATGCAAAACAGAGC

             *                  *            *               *               
       1485 CTGGGACCTCGAAACGCGTTGTTAGTCAAAAACTGTGATGGTTAGTACATGATTTCGGCTAAAAT
         65 CAGGG--CTCGAAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAT

               *           * *   *    *  * *     *    *      *               
       1550 TTTACAAAAATTGACACGAAACATTTCTCTTTAATTTCCGGCCACCATATTC-ATAAAAATTATA
        128 TTTGCAAAAATTGACCCAAAAAATTTTTCCTCAATTTACGGCAACCATACTCTATAAAAA-TATA

                    
       1614 TAACTCAA
        192 TAACTCAA

       1622 TGTCAAAATT


Statistics
Matches: 448,  Mismatches: 75, Indels: 23
        0.82            0.14        0.04

Matches are distributed among these distances:
 331   10  0.02
 332   52  0.12
 333  174  0.39
 334    5  0.01
 335   81  0.18
 336   33  0.07
 337   83  0.19
 338   10  0.02

ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32


Consensus pattern (334 bp):   
ATTTGGTTAGATGGATATAGATATTTCAATGAGACTTGACGCCAAAAATCATGCAAAACAGAGCC
AGGGCTCGAAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTT
GCAAAAATTGACCCAAAAAATTTTTCCTCAATTTACGGCAACCATACTCTATAAAAATATATAAC
TCAAAATCAAAAAGATTGAAAGCCTTCTCACGCTTCTAATATCGTTTTTATTCATATTTTTTCCG
AATTAATTCCTAATTCAATCGAAACAGGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
GTGGCTAAG
Done.