Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5341.0, 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, 925

Length: 1542
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.28

Warning! 342 characters in sequence are not A, C, G, or T


Found at i:1173 original size:171 final size:166

Alignment explanation


    Indices: 880--1539  Score: 510
    Period size: 171  Copynumber: 3.9  Consensus size: 166

        870 TAAAGCTCAC

                 *             *       *                *  * *               
        880 ATTATAAGATTATAAAACCGTTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAA
          1 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTCAAAGCATG-GTGACTATAAA

                    *                 **    *    **     *       *            
        945 TGGACTAACTT-TTG-CAAATGAATGTGTTTTTTTCATATTTT-TAGAGGTAGA-CATTCAATTA
         64 TGGACT--TTTCTTGTC-AATG-ATGACTTTTCTTCACGTTTTCCA-AGG-AAATCATTCAATTA

                  *       *               *              
       1006 TAATATGTTTTAACCAAAAATATAAAAAAGCTCGACTTAAAATCA
        123 TAATATATTTTAACAAAAAATATAAAAAAGATC-ACTTAAAATCA

                                   *                         **              
       1051 ATTATGAGATTATAAAACCATTTCAAGCGAGTAATAAGGCTTTCAAAAGTTTGAGTGACTATAAA
          1 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-AAAGCATG-GTGACTATAAA

                      * *    *                                               
       1116 TGGACTTTTCATATCAGTTGATGACTTTTGCTTCACGTTTTCCAAGGAAATCATTCAATTATAAT
         64 TGGACTTTTCTTGTCA-ATGATGACTTTT-CTTCACGTTTTCCAAGGAAATCATTCAATTATAAT

                     *       *          *    *       
       1181 ATATTTTAGTCAAAAAAGATAAAAAAGAACACTCAAAATCA
        127 ATATTTTA-ACAAAAAATATAAAAAAGATCACTTAAAATCA

                             **       *         *       *  *                 
       1222 ATTATGAGATTATAAAATGATTTAAATCGAGTAATATGGCTTCTGAAGGCATGGATGACTATAAA
          1 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT-TCAAAGCATGG-TGACTATAAA

                                *   *       *  *                   *         
       1287 TGGACTTTTCTTGTCAATGAAGTAATTTT-TTTACATGTTTCTCAAGGCAAAT-AGTCAATTATA
         64 TGGACTTTTCTTGTCAATGATG-ACTTTTCTTCACGT-TTTC-CAAGG-AAATCATTCAATTATA

              *   *   * *    * *         *     *        
       1350 ATCTATCTTATCCAAAATTGTAAAAACA-TTCAACCTAAAATCA
        125 ATATATTTTAACAAAAAATATAAAAA-AGATC-ACTTAAAATCA

                *      *                           *    *                    
       1393 ATTACGAGATTGTAAAACCATTTAAAGCGAGTAATAAGGTTTTCGAAGCCATGGGTGACTATAAA
          1 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAG-CAT-GGTGACTATAAA

                                   *                   * *                   
       1458 TGGACTTTTCTTGTCAATGAATGGCTTTATCTTCACG-TTTCCTATGATAGA-CATTCAATTATA
         64 TGGACTTTTCTTGTCAATG-ATGACTTT-TCTTCACGTTTTCCAAGGA-A-ATCATTCAATTATA

              * *              
       1521 ATCTGTTTTAACAAAAAAT
        125 ATATATTTTAACAAAAAAT

       1540 GTA


Statistics
Matches: 389,  Mismatches: 76, Indels: 48
        0.76            0.15        0.09

Matches are distributed among these distances:
 169    8  0.02
 170   43  0.11
 171  307  0.79
 172   27  0.07
 173    4  0.01

ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35


Consensus pattern (166 bp):   
ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGCATGGTGACTATAAATG
GACTTTTCTTGTCAATGATGACTTTTCTTCACGTTTTCCAAGGAAATCATTCAATTATAATATAT
TTTAACAAAAAATATAAAAAAGATCACTTAAAATCA
Done.