Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400855.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4024.0, 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: 4252
ACGTcount: A:0.20, C:0.08, G:0.07, T:0.22

Warning! 1834 characters in sequence are not A, C, G, or T


Found at i:1412 original size:171 final size:169

Alignment explanation


    Indices: 783--1456  Score: 577
    Period size: 171  Copynumber: 3.9  Consensus size: 169

        773 NNNNNNNNNN

                                             *                               
        783 TTAAGTTAAATTTTTTTATATTTTTGGCTAAAATAGACTATAATTGAATGTCTATATCGAGAAAC
          1 TTAAGTTAAA-TTTTTTATATTTTTGGCTAAAACAGACTATAATTGAATGTCTATATCGAGAAAC

             *           *                    *                     *        
        848 AATAAGAAAAAGGTATTCATTGGTAAGAAAAGTCCATTTATAGCCACCCATTCCTTTAAAAGCCT
         65 ATTAAGAAAAAGGCATTCATTGGTAAGAAAAGTCTATTTATAGCCACCCATTCCTTCAAAAGCCT

             *                              *********
        913 TGTTACTCACTTTAAATGGTTTTATAATCTCNNNNNNNNNN
        130 TATTACTCACTTTAAATGGTTTTATAATCTC-AAATTGATT

               *   *          *      ***   *  *          *         *    *    
        954 TTAGGTTGAATTTGTTTACATTTTTCATTAATACGGACTATAATTCAATG-CT-TGTCTTAAGAA
          1 TTAAGTTAAATTT-TTTATATTTTTGGCTAAAACAGACTATAATTGAATGTCTATATC--GAGAA

             *             *   *                           * **              
       1017 ATATGT-AGAAAAAGCCATGCATTGAG-AAGAAAAGTCTATTTATAGTCGTCCATTCCTTCAAAA
         63 ACAT-TAAGAAAAAGGCATTCATTG-GTAAGAAAAGTCTATTTATAGCCACCCATTCCTTCAAAA

             **     *                               ******
       1080 GTTTTATTTCTCGA-TTTAAATGGTTTTATAATCTCAAANNNNNNN
        126 GCCTTATTACTC-ACTTTAAATGGTTTTATAATCTCAAA-TTGATT

            ***    *        *         * *       * *           **   **   *  * 
       1125 NNNAGTTTAATTTTTTTTGCATTTTTAGTTAAAACAAATTATAATTGAATACCTACCTCGTGAGA
          1 TTAAGTTAAATTTTTTAT--ATTTTTGGCTAAAACAGACTATAATTGAATGTCTATATCGAGAAA

             * *                       *         *    * *        *           
       1190 CGTGAAGAAAAAGGCATTCATTGGTAAAAAAAGTCTAGTTATGGTCACCCATTTCTTCAAAAGCC
         64 CATTAAGAAAAAGGCATTCATTGGTAAGAAAAGTCTATTTATAGCCACCCATTCCTTCAAAAGCC

                                                      
       1255 TTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATT
        129 TTATTACTCACTTTAAATGGTTTTATAATCTCA-AATTGATT

                                             *                               
       1297 TTAAGTTAAATGTTTTTATATTTTTGGCTAAAATAGACTATAATTGAATGTCTATATCGAGAAAC
          1 TTAAGTTAAAT-TTTTTATATTTTTGGCTAAAACAGACTATAATTGAATGTCTATATCGAGAAAC

                         *                                           *       
       1362 ATTAAGAAAAAGGTATTCATTGGTAAGAAAAGT-TCATTTATAGCCACCCATTCCTTTAAAAGCC
         65 ATTAAGAAAAAGGCATTCATTGGTAAGAAAAGTCT-ATTTATAGCCACCCATTCCTTCAAAAGCC

                          *                
       1426 TTATTACTCACTTTGAATGGTTTTATAATCT
        129 TTATTACTCACTTTAAATGGTTTTATAATCT

       1457 NNNNNNNNNN


Statistics
Matches: 391,  Mismatches: 95, Indels: 34
        0.75            0.18        0.07

Matches are distributed among these distances:
 169    3  0.01
 170    9  0.02
 171  252  0.64
 172  115  0.29
 173   10  0.03
 174    2  0.01

ACGTcount: A:0.34, C:0.13, G:0.13, T:0.38


Consensus pattern (169 bp):   
TTAAGTTAAATTTTTTATATTTTTGGCTAAAACAGACTATAATTGAATGTCTATATCGAGAAACA
TTAAGAAAAAGGCATTCATTGGTAAGAAAAGTCTATTTATAGCCACCCATTCCTTCAAAAGCCTT
ATTACTCACTTTAAATGGTTTTATAATCTCAAATTGATT
Done.