Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401549.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4673.0, 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: 1770
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.29

Warning! 460 characters in sequence are not A, C, G, or T


Found at i:1483 original size:172 final size:168

Alignment explanation


    Indices: 1133--1769  Score: 587
    Period size: 172  Copynumber: 3.7  Consensus size: 168

       1123 NNNNNNNNNN

                             *             *    *     *    *               * 
       1133 ATTACTCGCTTTAAATGTTTTTATAATCTCAAAATTGATTTTTAGTTCAATTGTTTTTACATTAT
          1 ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATT-TTTTTACATTTT

                     * * *         *  *   *                       *      * * 
       1198 TGGTTAAAATATATTATAATTGATTGCTTATCTCT-AGAAACGTGAAGAAAAAATCATTCATTGG
         65 TGGTT-AAACAGACTATAATTGAATGTTTACCT-TGAGAAACGTGAAG-AAAAAGCATTCACTAG

            *  *                     *********     * * 
       1262 TAAGAAAAGTCCATTTATAGTCACNNNNNNNNNNAAAAGCCAT
        127 AAAAAAAAGTCCATTTATAGTCAC-CCATCCCTTAAAAGGCTT

                                   *      *     *                          * 
       1305 ATTACTCGCTTTAAATGGTTTTAAAATCTCGTAATTGATTTTAAGTTGAA-TTTTTTAGCATTCT
          1 ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTTTA-CATTTT

                                     *         *                *            
       1369 TGGTTAAAGCAGACTATAATTGAATTTTTACCTTGGGAAACGTGAAGAATAAGGCATTCACTAGC
         65 TGGTTAAA-CAGACTATAATTGAATGTTTACCTTGAGAAACGTGAAGAA-AAAGCATTCACTAG-

                                    *         *********
       1434 AAAAAAAAGTCCATTTATAGTCACTCATCCCTTNNNNNNNNNN
        127 AAAAAAAAGTCCATTTATAGTCACCCATCCCTT-AAAAGGCTT

                             *                            *           *      
       1477 ATTACTCGCTTTAAATGATTTTATAATCTCATAATTAATTTTAAGTAGAATTTTTTTATATTTTT
          1 ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTTTACATTTTT

                      * *             *  *   *      *                  *   * 
       1542 GGTTAAAACACAATATAATTGAATGTCTAGCTTAAGAAACATGAAGAAACAAGCATTCATTAGTA
         66 GGTT-AAACAGACTATAATTGAATGTTTACCTTGAGAAACGTGAAGAAA-AAGCATTCACTAGAA

             *                        *             
       1607 AGAAAAGTCCATTTATAGTCACCCATTCCTTAAAAGGCTT
        129 AAAAAAGTCCATTTATAGTCACCCATCCCTTAAAAGGCTT

                   *                                                         
       1647 ATTACTCACTTTAAATGGTTTT-TAATCTCATAATTAATTTTAAGTTGAATTTTTTTACATTTTT
          1 ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTTTACATTTTT

                                                      *                
       1711 GGTTACAACAGACTATAATTGAATGTTTACCTTGAGAAACGTAAAGAAAAAAGCATTCA
         66 GGTTA-AACAGACTATAATTGAATGTTTACCTTGAGAAACGTGAAG-AAAAAGCATTCA

       1770 T


Statistics
Matches: 374,  Mismatches: 80, Indels: 25
        0.78            0.17        0.05

Matches are distributed among these distances:
 168    1  0.00
 169   86  0.23
 170   35  0.09
 171   79  0.21
 172  163  0.44
 173   10  0.03

ACGTcount: A:0.35, C:0.12, G:0.12, T:0.38


Consensus pattern (168 bp):   
ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTTTACATTTTT
GGTTAAACAGACTATAATTGAATGTTTACCTTGAGAAACGTGAAGAAAAAGCATTCACTAGAAAA
AAAAGTCCATTTATAGTCACCCATCCCTTAAAAGGCTT
Done.