Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402439.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5518.0, 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, 880

Length: 1468
ACGTcount: A:0.25, C:0.10, G:0.09, T:0.26

Warning! 457 characters in sequence are not A, C, G, or T


Found at i:1115 original size:171 final size:171

Alignment explanation


    Indices: 815--1468  Score: 438
    Period size: 171  Copynumber: 3.8  Consensus size: 171

        805 NNNNNNNNNN

                       *                 *                  **               
        815 TACATTATTGGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAATGTGAAAAAAAAGGCAT
          1 TACATTATTGGCTAAAACAGACTATAATTCAATGTCTACCTCAAGAAACATGAAAAAAAAGGCAT

               *     *                   *  *              *      **         
        880 TCATTGGCAGGAAAAGTCTATTTATAGTCTCTTATTCCTTCAAAAGCGGTATTATTCGCTTTAAA
         66 TCAGTGGCAAGAAAAGTCTATTTATAGTCACTCATTCCTTCAAAAGCCGTATTACACGCTTTAAA

                                                     
        945 TGATTTTATAATCTCAAAATTGATTTTAGGTTCAATTGTTT
        131 TGATTTTATAATCTCAAAATTGATTTTAGGTTCAATTGTTT

                             *   *             *      *           *       *  
        986 TACATTATTGGCTAAAATAGATTATAATTCAATGTTTACCTCGAGAAACATGAAGAAAAAGGGAT
          1 TACATTATTGGCTAAAACAGACTATAATTCAATGTCTACCTCAAGAAACATGAAAAAAAAGGCAT

             *               *                   *          *        *       
       1051 TTAGTGGCAAGAAAAGTTTATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACACTCTTTAAA
         66 TCAGTGGCAAGAAAAGTCTATTTATAGTCACTCATTCCTTCAAAAGCCGTATTACACGCTTTAAA

              *             * *  *      **  *        
       1116 TGGTTTTATAATCTCATACTTAATTTTAAATTGAATT-TTT
        131 TGATTTTATAATCTCAAAATTGATTTTAGGTTCAATTGTTT

                    *  *    *  * *         * *       *         ** ** * *     
       1156 TAACATTTTTTAG-TACAATATACTATAATTTATTG-CTTATCTCAAGAAAGGTTTAGAGAAA-G
          1 T-ACA-TTATTGGCTAAAACAGACTATAATTCAATGTC-TACCTCAAGAAACATGAAAAAAAAGG

                   *   *                       * *         *     * *    *  * 
       1218 CTATTCATTGGGAAGAAAAGT-TCATTTATAGTCATTTATTCCTTCAGAAGCCTTGTTACTCGGT
         63 C-ATTCAGTGGCAAGAAAAGTCT-ATTTATAGTCACTCATTCCTTCAAAAGCCGTATTACACGCT

                                  *    ********** *    *   
       1282 TTAAATTG-TTTTATAATCTCATAATTNNNNNNNNNNTGAATTTTTT
        126 TTAAA-TGATTTTATAATCTCAAAATTGATTTTAGGTTCAATTGTTT

                  *   **     *  *        *        *  **     * *   *          
       1328 TACATTTTTGATTAAAATAGTCTATAATTGAATGTCTATCTTGAGAAATAAGAAGAAAAAGGCAT
          1 TACATTATTGGCTAAAACAGACTATAATTCAATGTCTACCTCAAGAAACATGAAAAAAAAGGCAT

               *   *             *         *    *           * *    * *       
       1393 TCATTGGTAAGAAAAGTCTATCTATAGTCACCCATTTCTTCAAAAGCCTTCTTACTCACTTTAAA
         66 TCAGTGGCAAGAAAAGTCTATTTATAGTCACTCATTCCTTCAAAAGCCGTATTACACGCTTTAAA

                       
       1458 TGATTTTATAA
        131 TGATTTTATAA


Statistics
Matches: 379,  Mismatches: 92, Indels: 24
        0.77            0.19        0.05

Matches are distributed among these distances:
 170   13  0.03
 171  351  0.93
 172   15  0.04

ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38


Consensus pattern (171 bp):   
TACATTATTGGCTAAAACAGACTATAATTCAATGTCTACCTCAAGAAACATGAAAAAAAAGGCAT
TCAGTGGCAAGAAAAGTCTATTTATAGTCACTCATTCCTTCAAAAGCCGTATTACACGCTTTAAA
TGATTTTATAATCTCAAAATTGATTTTAGGTTCAATTGTTT
Done.