Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399235.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2502.0, 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, 998

Length: 1664
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.32

Warning! 256 characters in sequence are not A, C, G, or T


Found at i:881 original size:171 final size:171

Alignment explanation


    Indices: 117--938  Score: 616
    Period size: 171  Copynumber: 4.8  Consensus size: 171

        107 NNNNNNNNTG

                  *              *   *                    *  * *             
        117 AGATTAAAAAACCATTTAAAGTGAGCAATAAGGCTTTTGAAGGAATAGGTGACTATAAATAGACT
          1 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGGCTATAAATAGACT

                   *  *    *           *       *    **                       
        182 TTTCTTGTCATTGAAAGCTTTTTTCTTAATGTTTCCTGAGATAGATATTCAATTATAGTTTGTTT
         66 TTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTTGAGGCAGATATTCAATTATAGTTTGTTT

                *   **********                   *   
        247 TAATTAAANNNNNNNNNNAATTCAACTTAAAATCGATTATT
        131 TAATGAAAAATATAAAAAAATTCAACTTAAAATCGATCATT

                                ***                               *      *   
        288 AGATTATAAAACCATTTAAAATAAGTAATAAGGCTTTTGAAGGAATGGGAGGCTGTAAATACA-T
          1 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGGCTATAAATAGACT

                             *       *             *                         
        352 TTTGCTTGCCAATGAATACTTTTTTGTTCATGCTTT-TTAAGGCAGATATTCAATTATAGTTTGT
         66 TTT-CTTGCCAATGAATGCTTTTTTCTTCATG-TTTCTTGAGGCAGATATTCAATTATAGTTTGT

                                    *  *        * *    *
        416 TTTAATGAAAAATAT-AAAAAATTAAAATTAAAAT-TAACTATG
        129 TTTAATGAAAAATATAAAAAAATTCAACTTAAAATCGATC-ATT

             *                    *              *           *            *  
        458 AAATTATAAAA-CATTTAGAA-AGAGTAA-AATGGCTGTTGAAGGAATGCGAGGCTATAAATGGA
          1 AGATTATAAAACCATTTA-AAGCGAGTAATAA-GGCTTTTGAAGGAATGGGAGGCTATAAATAGA

                  *  **  *                                       **********  
        520 CTTTCTTTTATCAGTGAATGCTTTTTTCTTCATGTTTCTTGAGGCAGATATTCNNNNNNNNNNTG
         64 CTTT-TCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTTGAGGCAGATATTCAATTATAGTTTG

                          *       *       *     **  *  *
        585 TTTTAATGAAAAATGTAAAAAACTTCAACTGAAAATTAATTATC
        128 TTTTAATGAAAAATATAAAAAAATTCAACTTAAAATCGATCATT

                        *                               *  *   *        * ***
        629 AGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGATTGAGAGACTATAAATGGNNN
          1 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGGCTATAAATAGACT

            *******  *         *    *    *        *  *              *       *
        694 NNNNNNNCCCATGAATGCTCTTTTATTCACGTTTCTTGTGGTAGATATTCAATTATTGTTTGTTC
         66 TTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTTGAGGCAGATATTCAATTATAGTTTGTTT

                *                                    
        759 TAATAAAAAATATAAAAAAATTCAACTTAAAATCGATCATT
        131 TAATGAAAAATATAAAAAAATTCAACTTAAAATCGATCATT

             *                         *                     *      *        
        800 ACATTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTTGAAGGAATGGGTGGCTATCAATAGACT
          1 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGGCTATAAATAGACT

            *                        *           **  **   *                  
        865 GTTCTTGCCAATGAATGCTTTTTTTTTTCATGTTTCTCAAGATAGACATTCAATTATTA-TTTGT
         66 TTTCTTGCCAATGAATGC-TTTTTTCTTCATGTTTCTTGAGGCAGATATTCAATTA-TAGTTTGT

            *         
        929 GTTAATGAAA
        129 TTTAATGAAA

        939 NNNNNNNNNN


Statistics
Matches: 491,  Mismatches: 145, Indels: 29
        0.74            0.22        0.04

Matches are distributed among these distances:
 168    2  0.00
 169   42  0.09
 170   87  0.18
 171  274  0.56
 172   83  0.17
 173    3  0.01

ACGTcount: A:0.36, C:0.10, G:0.15, T:0.36


Consensus pattern (171 bp):   
AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGGCTATAAATAGACT
TTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTTGAGGCAGATATTCAATTATAGTTTGTTT
TAATGAAAAATATAAAAAAATTCAACTTAAAATCGATCATT
Done.