Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402408.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5488.0, 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, 672

Length: 1120
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38


Found at i:721 original size:171 final size:172

Alignment explanation


    Indices: 446--1116  Score: 559
    Period size: 171  Copynumber: 3.9  Consensus size: 172

        436 GGTAAAAATG

                  *                        * *  *    *       *     * *       
        446 TTACTCGCTTTAAATGGTTTTATAATGC-CATAGTTTATTTTAAGTTGATTTTTTTTGCATTTTT
          1 TTACTCACTTTAAATGGTTTTATAAT-CTCAAAATTAATTTAAAGTTGAATTTTTGTACATTTTT

                *   *                  *      *                   * *   *    
        510 AGTTCAAATATATTATAATTGAATGTCTACGTT-GAGAAACATGAAGA-AAAGATCTTTCGTTGG
         65 AGTTAAAACATATTATAATTGAATGTCAAC-TTCAAGAAACATGAAGACAAAGAGCATTCATTGG

                   *   *                                
        573 CAAGAAAGGTCTATTTATAGTCACCTATTCCTTCAAAAGCCTTA
        129 CAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTA

                *                                      *                     
        617 TTACACACTTTAAATGGTTTTATAATCTCAAAATTAATTTAAATTTGAATTCTTTGTACA-TTTT
          1 TTACTCACTTTAAATGGTTTTATAATCTCAAAATTAATTTAAAGTTGAATT-TTTGTACATTTTT

             *                      *     *                *                 
        681 ACTTAAAACATATTATAATTGAATTTCAACCTCAAGAAACATGAAGAAAAAG-GCATTCATTGGC
         65 AGTTAAAACATATTATAATTGAATGTCAACTTCAAGAAACATGAAGACAAAGAGCATTCATTGGC

                                 *   *              *   
        745 AAGATAAA-TCCATTTATAGTTACCCATTCCTTCAAAAGCTTTA
        130 AAGA-AAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTA

                                   *  *    *    *    * * *                   
        788 TTACTCAGC-TTAAATGGTTTTACAAGCTCATAATTGATTTTAGGATGAACTTTTTG-AC---TT
          1 TTACTCA-CTTTAAATGGTTTTATAATCTCAAAATTAATTTAAAGTTGAA-TTTTTGTACATTTT

                  *    *            **    *          *           *   *     * 
        848 TAGTTAGAACAAATTATAATTGAACATCTATCTTCGAA-AATC-TGAAGACAATGA-TATTCACT
         64 TAGTTAAAACATATTATAATTGAATGTC-AACTTC-AAGAAACATGAAGACAAAGAGCATTCATT

            ** *                *                         * 
        910 AACGAGAAAAGTCCATTTATTGTCAGCC-ATTCCTTCAAAAG-CTCGA
        127 GGCAAGAAAAGTCCATTTATAGTCA-CCTATTCCTTCAAAAGCCT-TA

            *                                  *    *      *       *  *      
        956 CTACTCACTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTCAAATTTTTTTATATTTTT
          1 TTACTCACTTTAAATGGTTTTATAATCTCAAAATTAATTTAAAGTT-GAATTTTTGTACATTTTT

            *       *                  * *   *           * *                 
       1021 GGTTAAAATATATTATAATTGAATGTCTAGTTCGAGAAACATGAAAAGAAAG-GCATTCATTGGC
         65 AGTTAAAACATATTATAATTGAATGTCAACTTCAAGAAACATGAAGACAAAGAGCATTCATTGGC

                      *                      
       1085 AAGAAAAGTCTATTTATAGTCA-CTCATTCCTT
        130 AAGAAAAGTCCATTTATAGTCACCT-ATTCCTT

       1117 TAAA


Statistics
Matches: 393,  Mismatches: 83, Indels: 47
        0.75            0.16        0.09

Matches are distributed among these distances:
 167    5  0.01
 168  113  0.29
 169   12  0.03
 170    8  0.02
 171  175  0.45
 172   80  0.20

ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38


Consensus pattern (172 bp):   
TTACTCACTTTAAATGGTTTTATAATCTCAAAATTAATTTAAAGTTGAATTTTTGTACATTTTTA
GTTAAAACATATTATAATTGAATGTCAACTTCAAGAAACATGAAGACAAAGAGCATTCATTGGCA
AGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTA
Done.