Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400137.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3352.0, 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, 861

Length: 1435
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.30

Warning! 243 characters in sequence are not A, C, G, or T


Found at i:1309 original size:172 final size:170

Alignment explanation


    Indices: 815--1309  Score: 431
    Period size: 171  Copynumber: 2.9  Consensus size: 170

        805 NNNNNNNNNC

                     * * *               *              **        *          
        815 TTCATGTTTCTCATGGTAGACATTCAATTCTAGTCTATTTTAAATAAAAATGTACAAAACATTCA
          1 TTCATGTTTATAAAGGTAGACATTCAATTATAGTCTATTTT-AACCAAAA-GTATAAAACATTCA

                     *      *                      *                         
        880 AATTTAAATGAATTTTGAGATTATAAAACCTTTTAAACTAAGTAATAAGGCTCTCCAAGGAATGG
         64 AATTTAAATCAATTTTAAGATTATAAAACCTTTTAAACTGAGTAATAAGGCTCTCCAAGGAATGG

              *                       *      *   *    
        945 GTAACTATAAATGGACTTTTCTTACCGATGAATGCTTTTTTA
        129 GTGACTATAAATGGACTTTTCTTACCAATGAATACTTATTTA

              *        **                   *   *                    *    *  
        987 TTTATGTTTATCGAGGTAGACATTCAATTATATTCTGTTTTAACCAAAAGTATAAAAAAGTTGAA
          1 TTCATGTTTATAAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAGTATAAAACA-TTCAA

            *  *                     *      *                   ********** * 
       1052 CTTAAAATCAA---TAACGGCATTACAAAACCATTTAAAGC-GAGTAATAAGNNNNNNNNNNGTA
         65 ATTTAAATCAATTTTAA--G-ATTATAAAACCTTTTAAA-CTGAGTAATAAGGCTCTCCAAGGAA

              *      *                *                 *
       1113 TGAGTGACTGTAAATGGACTTTTCTTGCCAATGAATACTTATTTC
        126 TGGGTGACTATAAATGGACTTTTCTTACCAATGAATACTTATTTA

                     *                   *                 ********          
       1158 TTCATGTTTCTAAAGGTAGACATTCAATTCTAGTCTATTTTAACCNNNNNNNNNNAAAACATTCA
          1 TTCATGTTTATAAAGGTAGACATTCAATTATAGTCTATTTTAACC--AAAAGTATAAAACATTCA

                                                                             
       1223 AATTTAAATCAATTTTAAGATTATAAAACCTTTTAAACTGAGTAATAAGGCTCTCCAAGGAATGG
         64 AATTTAAATCAATTTTAAGATTATAAAACCTTTTAAACTGAGTAATAAGGCTCTCCAAGGAATGG

                                  
       1288 GTGACTATAAATGGACTTTTCT
        129 GTGACTATAAATGGACTTTTCT

       1310 NNNNNNNNNN


Statistics
Matches: 240,  Mismatches: 72, Indels: 22
        0.72            0.22        0.07

Matches are distributed among these distances:
 168    2  0.01
 170    9  0.04
 171  121  0.50
 172   99  0.41
 173    6  0.03
 175    3  0.01

ACGTcount: A:0.36, C:0.13, G:0.13, T:0.34


Consensus pattern (170 bp):   
TTCATGTTTATAAAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAGTATAAAACATTCAAA
TTTAAATCAATTTTAAGATTATAAAACCTTTTAAACTGAGTAATAAGGCTCTCCAAGGAATGGGT
GACTATAAATGGACTTTTCTTACCAATGAATACTTATTTA
Done.