Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402295.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5377.0, 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, 767

Length: 1279
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.35

Warning! 60 characters in sequence are not A, C, G, or T


Found at i:724 original size:171 final size:172

Alignment explanation


    Indices: 206--857  Score: 459
    Period size: 171  Copynumber: 3.8  Consensus size: 172

        196 NNNNATGGGT

                       *                *            *             *   *    *
        206 GACTATAAATAGACTTTTCTTGTC-AATAAATATC-TTTTTCTTCACGTTT-CTCAAT-ATAGAC
          1 GACTATAAATAAACTTTTCTTG-CAAATGAAT-TCATTTTTTTTCACGTTTCCT-GATGGTAGAT

                       *           *  *  **                      *           
        267 ATTCAATTATAGTCTGTTTTAACTAATAATATAAAAAAATT-AA-TATAAAATTAATTATGAGAT
         63 ATTCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACT-TAAAATCAATTATGAGAT

                     **********  * *                      
        330 TATAAAACTNNNNNNNNNNAGTAGTAAGGCTTTTGAAGGAATGAGA
        127 TATAAAACTATTTAAAGTGAGCAATAAGGCTTTTGAAGGAATGAGA

              *       ** *         *       * *     *     *    *              
        376 GAATATAAATGCATTTTTCTTGCCAATGAATACCTTTTTCTTCACATTTCTTGAT-GTAGATATT
          1 GACTATAAATAAACTTTTCTTGCAAATGAATTCATTTTTTTTCACGTTTCCTGATGGTAGATATT

            *                  *         *               *          *        
        440 TAATTATAATCTGTTTTAATC-AAAAGAGCAAAACAAATT-AACTGAAAATCAATTTTGAGATTA
         66 CAATTATAATCTGTTTTAACCAAAAAG-GTAAAA-AAATTCAACTTAAAATCAATTATGAGATTA

                *                    * *    *          *
        503 TAAATCTATTTAAAGTGAGCAATAAAGTTTTTAAAGGAATGAGT
        129 TAAAACTATTTAAAGTGAGCAATAAGGCTTTTGAAGGAATGAGA

                               *                              *          *   
        547 GACTATAAATAAACTTTTCCTGCAAATGAATTCATTTTTTTTCACGTTTCGT-ATGGTAGACATT
          1 GACTATAAATAAACTTTTCTTGCAAATGAATTCATTTTTTTTCACGTTTCCTGATGGTAGATATT

                    *   *                                           *        
        611 CAATTATAGTCTATTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATAAGATTATA
         66 CAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA

                      **********                  *   
        676 AAACTATTTANNNNNNNNNNTAAGGCTTTTGAAGGAATAAGA
        131 AAACTATTTAAAGTGAGCAATAAGGCTTTTGAAGGAATGAGA

                       *         *        * *         *              **  *   
        718 GACTATAAATAGACTTTTCTTCCAAAT-AAATGATTTTTTCTACACGTTTCCTGA-GACAGGTAT
          1 GACTATAAATAAACTTTTCTTGCAAATGAATTCATTTTTT-TTCACGTTTCCTGATGGTAGATAT

                   *    *        *     *    *                 *              
        781 TCAATTACAATCCGTTTTAACAAAAAATGT-ATAAAATTCAACTTAAAATTAATTATGAGATTAT
         65 TCAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTAT

                 *        
        845 -AAACCATTTAAAG
        130 AAAACTATTTAAAG

        858 CGTGTAATAA


Statistics
Matches: 372,  Mismatches: 99, Indels: 23
        0.75            0.20        0.05

Matches are distributed among these distances:
 169   14  0.04
 170  116  0.31
 171  235  0.63
 172    7  0.02

ACGTcount: A:0.39, C:0.11, G:0.11, T:0.36


Consensus pattern (172 bp):   
GACTATAAATAAACTTTTCTTGCAAATGAATTCATTTTTTTTCACGTTTCCTGATGGTAGATATT
CAATTATAATCTGTTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
AAACTATTTAAAGTGAGCAATAAGGCTTTTGAAGGAATGAGA
Done.