Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402282.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5365.0, 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, 1000

Length: 3072
ACGTcount: A:0.23, C:0.07, G:0.08, T:0.21

Warning! 1285 characters in sequence are not A, C, G, or T


Found at i:2090 original size:171 final size:169

Alignment explanation


    Indices: 1735--2420  Score: 621
    Period size: 170  Copynumber: 4.1  Consensus size: 169

       1725 TTCAAAGGCT

                     *            *  *          *  *                         
       1735 TGGGTGACTGTAAATAGACTTTCCTAGCCAATGAATAGCCTTTTCTTCACGTTTCTTGAGGTAAA
          1 TGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCTTGAGGTAAA

                     *                              *                    *   
       1800 CATTCAATTCTAATTTGTTTTAGA-AAAAAATATAAAAAAATTAATCTAAAATTAATTATGTGAT
         66 CATTCAATTATAATTTGTTTTA-ACAAAAAATATAAAAAATTTAA-CTAAAATTAATTATGAGAT

            * *                                *    * 
       1864 AAAAAAATCATTTAAAGCGAGTAAT-AAGACTTTTAAAAGTA
        129 TATAAAATCATTTAAAGCGAGTAATAAAG-CTTTTGAAAGAA

                  **        *          *                 *          *  *   * 
       1905 TGGGTGGTTATAAATAAACTTTTCTTGTCAATGAATGGCTTTTTCCTCACGTTTCTAGATGTAGA
          1 TGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCTTGAGGTAAA

                *         *                *                       *         
       1970 CATTGAATTATAATATGTTTTAACAAAAAATGTAAAACAATTTAACCTAAAATTAGTTATGAGAT
         66 CATTCAATTATAATTTGTTTTAACAAAAAATATAAAA-AATTTAA-CTAAAATTAATTATGAGAT

                   *   *                  *      *   
       2035 TATAAAACCATATAAAGCGAGTAATAAAGCCTTTGAATGAA
        129 TATAAAATCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAA

                           *     **     **                    *     *     *  
       2076 TGGGTGACTATAAATGGACTTCGCTTGCTTATGAAT-GCTTTTTGCTTCAAGTTTCCTGAGGCAA
          1 TGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGGCTTTTT-CTTCACGTTTCTTGAGGTAA

                                     *   *            *          *  *        
       2140 ACATTCAATTATAATTTGTTTTAACCAAATATATAAAAAATTCAACTCAAAATCAACTATGAGAT
         65 ACATTCAATTATAATTTGTTTTAACAAAAAATATAAAAAATTTAACT-AAAATTAATTATGAGAT

                                       * *       * **
       2205 TATAAAATCATTTAAAGCGAGTAATAAGGATTTTGAAGGCT
        129 TATAAAATCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAA

                       *               *                      *          *  *
       2246 TGGGTGACTATTAAT-GCACTTTTCTTACCAATGAATGGCTTTTTCTTCATGTTTCTTGAGATAG
          1 TGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCTTGAGGTAA

                                *        *            *          *  *       *
       2310 ACATTCAATT-TAA------CT-A-AAAATAT-TAAAAAATTAAATCTAAAATCAAATATGAGAC
         65 ACATTCAATTATAATTTGTTTTAACAAAAAATATAAAAAATTTAA-CTAAAATTAATTATGAGAT

            *                           *         *   
       2365 AATAAAA-CTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
        129 TATAAAATC-ATTTAAAGCGAGTAATAAAGCTTTTGAAAGAA

                            
       2406 -GGAGTGACTATAAAT
          1 TGG-GTGACTATAAAT

       2421 GGATTTTTTT


Statistics
Matches: 423,  Mismatches: 83, Indels: 30
        0.79            0.15        0.06

Matches are distributed among these distances:
 159    3  0.01
 160   72  0.17
 161    8  0.02
 162    1  0.00
 163    1  0.00
 169    7  0.02
 170  196  0.46
 171  132  0.31
 172    3  0.01

ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35


Consensus pattern (169 bp):   
TGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCTTGAGGTAAA
CATTCAATTATAATTTGTTTTAACAAAAAATATAAAAAATTTAACTAAAATTAATTATGAGATTA
TAAAATCATTTAAAGCGAGTAATAAAGCTTTTGAAAGAA

Done.