Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018403127.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_795.0, 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: 3026
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.26

Warning! 982 characters in sequence are not A, C, G, or T


Found at i:1123 original size:170 final size:170

Alignment explanation


    Indices: 798--1522  Score: 541
    Period size: 170  Copynumber: 4.2  Consensus size: 170

        788 NNNNAAGTTA

                                   *                      **   *    *    *   
        798 AATTTTTTTACATTTTTCATTAACACAGACTATAATTGAATG-TCTACCTCGAGAAGCATGAAGA
          1 AATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCT-TGGCTCAAGAAACATGTAGA

                       *              *  *     *                     *       
        862 AAAGAGC-ATTCATTG-GCAAGAAAATTCAATTTATAGTCTCCCATA-T-CTTCAAATGCCTTAT
         65 AAA-AGCAATTAATTGAG-AA-AAAAGTCCATTTACAGTCT--CATATTCCTTCAAACGCCTTAT

                 *    * *    * * *           *  **********
        923 TACTCGCTTTTAGTGGTTTTATAATCTCATAATTGANNNNNNNNNN
        125 TACTCACTTTAAATGGTGTCACAATCTCATAATAGATTTTACGTTG

                                      *                          *           
        969 AATTTTTTTACATTCTTT-ATTAAAATAGACTATAATTGAATAG-TTGGCTCAGGAAACATGTAG
          1 AATTTTTTTACATT-TTTCATTAAAACAGACTATAATTGAAT-GCTTGGCTCAAGAAACATGTAG

                       *                     *      *    *                   
       1032 AAAAAGCAATTTATTGAGAAAAAAGTCCATTTATAGTCTCTTATTTCTTCAAACGCCTTATTACT
         64 AAAAAGCAATTAATTGAGAAAAAAGTCCATTTACAGTCTCATATTCCTTCAAACGCCTTATTACT

            **                                        
       1097 TGCTTTAAATGGTGTCACAATCTCATAATAGATTTTACGTTG
        129 CACTTTAAATGGTGTCACAATCTCATAATAGATTTTACGTTG

                                                                    **       
       1139 AATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCTTGGCTCAAGAAATGTGTAGAA
          1 AATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCTTGGCTCAAGAAACATGTAGAA

                 *        *                                    *     *       
       1204 AAAGCCATTAATTGGGAAAAAAGTCCATTTACAGTCTCATATTCCTTCAAATGCCTTGTTACTCA
         66 AAAGCAATTAATTGAGAAAAAAGTCCATTTACAGTCTCATATTCCTTCAAACGCCTTATTACTCA

                       * * *  *********         *   *
       1269 CTTTAAATGGTTTTATANNNNNNNNNNT-GATTTTAAGTTC
        131 CTTTAAATGGTGTCACA-ATCTCATAATAGATTTTACGTTG

                          *                            *  *    *             
       1309 AATTTTTTTACATTCTTCATTAAAACAGACTATAATTGAATGCCTGCCTCATGAAACATGTAGAA
          1 AATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCTTGGCTCAAGAAACATGTAGAA

                 *   *                      *    **********     *            
       1374 AAAGCCATTCATTGAGAAGAAAAGTCCATTTATAGTCNNNNNNNNNNTCAAAAGCCTTATTACTC
         66 AAAGCAATTAATTGAGAA-AAAAGTCCATTTACAGTCTCATATTCCTTCAAACGCCTTATTACTC

                        * * *       *    *      * * *
       1439 ACTTTAAATGGTTTTATAATCTCAAAATATATTTTAAGCTC
        130 ACTTTAAATGGTGTCACAATCTCATAATAGATTTTACGTTG

                                                        
       1480 AATTTTTTTTACATTTTT-AGTTAAAACAGACTATAATTGAATG
          1 AA-TTTTTTTACATTTTTCA-TTAAAACAGACTATAATTGAATG

       1523 TCTACCTCAA


Statistics
Matches: 450,  Mismatches: 91, Indels: 25
        0.80            0.16        0.04

Matches are distributed among these distances:
 168    3  0.01
 169    5  0.01
 170  273  0.61
 171  126  0.28
 172   43  0.10

ACGTcount: A:0.34, C:0.14, G:0.12, T:0.37


Consensus pattern (170 bp):   
AATTTTTTTACATTTTTCATTAAAACAGACTATAATTGAATGCTTGGCTCAAGAAACATGTAGAA
AAAGCAATTAATTGAGAAAAAAGTCCATTTACAGTCTCATATTCCTTCAAACGCCTTATTACTCA
CTTTAAATGGTGTCACAATCTCATAATAGATTTTACGTTG
Done.