Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401996.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5092.0, 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: 2509
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.24

Warning! 841 characters in sequence are not A, C, G, or T


Found at i:2338 original size:171 final size:171

Alignment explanation


    Indices: 1746--2509  Score: 652
    Period size: 172  Copynumber: 4.5  Consensus size: 171

       1736 NNNNAAAACT

                                   *                        *          *     
       1746 ATTTAAAGCGAGTAATAAGGCTTACGAAGGCATGGGTGACTATAAATGAACTTTTCTTGTCAATG
          1 ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG

                 *        *  *    *                         *       *    *   
       1811 GATATATTTTTCTTTACATTTCCCGAGGCAAACATTCAATTATAATCTGTTTTAATAAAAAATAT
         66 GATATCTTTTTCTTCACGTTTCTCGAGGCAAACATTCAATTATAATCTATTTTAATGAAAATTAT

                       *                              
       1876 AAAAAACATTTCAATTAAAATCAATTATAAGGTTATAAAATC
        131 AAAAAA-ATTTAAATTAAAATCAATTATAAGGTTATAAAATC

                    *               ***********                              
       1918 ATTTAAAGTGAGTAATAAGGCTTTNNNNNNNNNNNGTGACTATAAATGGACTTTTCTTGCCAATG
          1 ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG

                            *      **  **                                 *  
       1983 GATATCTTTTTCTTCAGGTTTCTTAAGAAAAACATTCAATTATAATCTATTTTAATGAAAATGAT
         66 GATATCTTTTTCTTCACGTTTCTCGAGGCAAACATTCAATTATAATCTATTTTAATGAAAATTAT

                                             *        
       2048 AAAAAAAATTTAAATTAAAATCAATTATAAGGTCATAAAATC
        131 -AAAAAAATTTAAATTAAAATCAATTATAAGGTTATAAAATC

                                    **                    *******************
       2090 ATTTAAAGCGAGTAATAAGGCTTTTTAAGGCATGGGTGACTATAAANNNNNNNNNNNNNNNNNNN
          1 ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG

            *    *          *      *    * *         *              *         
       2155 NATATTTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATCATAATCTATTTTAACGAAAATTAT
         66 GATATCTTTTTCTTCACGTTTCTCGAGGCAAACATTCAATTATAATCTATTTTAATGAAAATTAT

            *               *                        
       2220 TAAAAAATTTAAATTATAATCAATTATAAGGTTATAAAATC
        131 AAAAAAATTTAAATTAAAATCAATTATAAGGTTATAAAATC

                     *                   * * *       *              * *      
       2261 ATTTAAAGCAAGTAATAAGGCTTTCGAAGACTTAGGTGACTGTAAATGGACTTTTCCTACCAATG
          1 ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG

                          *               *      ********** *             *  
       2326 GATATCTTTTTCTTGACGTTTCTCGAGGCAGACATTCNNNNNNNNNNTGTTTTAAT-AAAA-AAT
         66 GATATCTTTTTCTTCACGTTTCTCGAGGCAAACATTCAATTATAATCTATTTTAATGAAAATTAT

             *     * *                 *            *
       2389 ATAAAAACTCAAATTAAAATCAATTATGAGGTTATAAAATT
        131 AAAAAAATTTAAATTAAAATCAATTATAAGGTTATAAAATC

                       *              *         *                       *    
       2430 ATTTAAAGCGAATAATAAGG-TTCTCAAAGGCATGGATGACTATAAATGGACTTTTCTTGTCAAT
          1 ATTTAAAGCGAGTAATAAGGCTT-TCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAAT

             *              
       2494 GAATATCTTTTTCTTC
         65 GGATATCTTTTTCTTC


Statistics
Matches: 451,  Mismatches: 139, Indels: 7
        0.76            0.23        0.01

Matches are distributed among these distances:
 168    2  0.00
 169  100  0.22
 170    4  0.01
 171  115  0.25
 172  224  0.50
 173    6  0.01

ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35


Consensus pattern (171 bp):   
ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG
GATATCTTTTTCTTCACGTTTCTCGAGGCAAACATTCAATTATAATCTATTTTAATGAAAATTAT
AAAAAAATTTAAATTAAAATCAATTATAAGGTTATAAAATC
Done.