Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398465.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1762.0, 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: 3278
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.23

Warning! 1216 characters in sequence are not A, C, G, or T


Found at i:1335 original size:171 final size:169

Alignment explanation


    Indices: 855--1386  Score: 525
    Period size: 171  Copynumber: 3.1  Consensus size: 169

        845 NNNNNNNNNN

                 *                                    *        *         *   
        855 CTTTACATGGTTTTATAATACCATAATTGA-TTTTAGTTGAACG-TTTTTAAATTTTTGGTGAAA
          1 CTTTAAATGGTTTTATAAT-CCATAATTGATTTTTAGTT-AAAGTTTTTTACATTTTTGGTCAAA

                  * *     *       *              *                  *        
        918 ACAGACAAGAATT-GATGTCTACCTCGAGAAACGTAAGGAAAAAGGCATTCGTTGGGAAGAAAAG
         64 ACAGACTATAATTAAATGTC-AACTCGAGAAACGTAAAGAAAAAGGCATTCGTTGGCAAGAAAAG

             *     *     *                    *      *
        982 TGCATTTTTAGTCGTCCATTCCTTCAAAAGCCTTTTTACTCT
        128 TCCATTTATAGTCATCCATTCCTTCAAAAGCCTTATTACTCA

                    *              *         ** *  *                   *  *  
       1024 CTTTAAATAGTTTTATAATCTCAAAATTGATTTAAATTTGAA-TTATTTATACATTTTTTGTTAA
          1 CTTTAAATGGTTTTATAATC-CATAATTGATTTTTAGTTAAAGTT-TTT-TACATTTTTGGTCAA

                * *    *               *        *             * *    *       
       1088 AACATATTATACTTAAATGTCAACTTCAAGAAACGTGAAGAAAAAGGCATACATTGGTAAGAAAA
         63 AACAGACTATAATTAAATGTCAAC-TCGAGAAACGTAAAGAAAAAGGCATTCGTTGGCAAGAAAA

              * *                             *        
       1153 GTTCGTTTATAGTCATCCATTCCTTCAAAAGCCTCATTACTCA
        127 GTCCATTTATAGTCATCCATTCCTTCAAAAGCCTTATTACTCA

                                        *                    *               
       1196 CTTTAAATGGTTTTATAATGCCATAATTAATTTTTAGTTAAAGTTTTTTGCATTTTTGGTCAAAA
          1 CTTTAAATGGTTTTATAAT-CCATAATTGATTTTTAGTTAAAGTTTTTTACATTTTTGGTCAAAA

                                            **          **   *      *        
       1261 CAGACTATAATTAAATGTCAATCTCGAGAAACACAAAGAAAAAGATATTTGTTGGCCAGAAAAGT
         65 CAGACTATAATTAAATGTCAA-CTCGAGAAACGTAAAGAAAAAGGCATTCGTTGGCAAGAAAAGT

                            *            *     *      
       1326 CCATTTATAGTCA-CTTATTCCTTCAAAAACCTTAATACTCA
        129 CCATTTATAGTCATC-CATTCCTTCAAAAGCCTTATTACTCA

                          *     
       1367 CTTTAAATGGTTTTGTAATC
          1 CTTTAAATGGTTTTATAATC

       1387 TCAAAATTNN


Statistics
Matches: 290,  Mismatches: 62, Indels: 21
        0.78            0.17        0.06

Matches are distributed among these distances:
 168    1  0.00
 169   27  0.09
 170   10  0.03
 171  137  0.47
 172  112  0.39
 173    3  0.01

ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37


Consensus pattern (169 bp):   
CTTTAAATGGTTTTATAATCCATAATTGATTTTTAGTTAAAGTTTTTTACATTTTTGGTCAAAAC
AGACTATAATTAAATGTCAACTCGAGAAACGTAAAGAAAAAGGCATTCGTTGGCAAGAAAAGTCC
ATTTATAGTCATCCATTCCTTCAAAAGCCTTATTACTCA
Done.