Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018403192.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_860.0, 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: 2945
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.24

Warning! 1070 characters in sequence are not A, C, G, or T


Found at i:1982 original size:171 final size:171

Alignment explanation


    Indices: 1656--2335  Score: 597
    Period size: 171  Copynumber: 4.0  Consensus size: 171

       1646 NNNNNNNNNN

                                                         * **   *            
       1656 TGAATTTTTTTACATTCTTCATTAAAACAGACTATAATTGAATGCTTGGCTCAAGAAACATGTAG
          1 TGAATTTTTTTACATTCTTCATTAAAACAGACTATAATTGAATGCCTACCTCTAGAAACATGTAG

            *              *            **                          *        
       1721 GAAAA-TCCATTCATCGAGAAGAAAAGTTTATTTATAGTCTC-CTATTCCTTCAAACGCCTTATT
         66 AAAAACT-CATTCATTGAGAAGAAAAGTCCATTTATAGTCTCTC-ATTCCTTCAAAAGCCTTATT

               *   **********   *                      
       1784 ACTTGCTNNNNNNNNNNTTACAATCTCATAATAGATTTTAAGC
        129 ACTCGCTTTAAATGGTTTTATAATCTCATAATAGATTTTAAGC

             *  *                      *   *  *             *    *      *    
       1827 TTAAGTTTTTTACATTCTTCATTAAAATAGAGTAGAATTGAATGCCTAGCT-TGGCAAACGTGTA
          1 TGAATTTTTTTACATTCTTCATTAAAACAGACTATAATTGAATGCCTACCTCTAG-AAACATGTA

                    *                                      *       *         
       1891 GAAAAACTTATTCATTGAGAAGAAAAGTCCATTTATAGTCTCTCATTTCTTCAAACGCCTTATTA
         65 GAAAAACTCATTCATTGAGAAGAAAAGTCCATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTA

              *                         *  * *********
       1956 CTTGCTTTAAATGGTTTTATAATCTCATTATTGNNNNNNNNN
        130 CTCGCTTTAAATGGTTTTATAATCTCATAATAGATTTTAAGC

            *                          *                *                    
       1998 NGAATTTTTTTACATTCTTCATTAAAATAGACTATAATTGAATGTCTACCTC-ATGAAACATGTA
          1 TGAATTTTTTTACATTCTTCATTAAAACAGACTATAATTGAATGCCTACCTCTA-GAAACATGTA

                             *                        *          *    *      
       2062 GAAAAAGC-CATTCATTAAGAAGAAAAGTCCATTTATAGTCAACT-ATTCCTTTAAAAACCTTAT
         65 GAAAAA-CTCATTCATTGAGAAGAAAAGTCCATTTATAGTC-TCTCATTCCTTCAAAAGCCTTAT

                           *                            
       2125 TACTCGCTTTAAATGATTTTATAATCTCATAATAGATTTTAAGC
        128 TACTCGCTTTAAATGGTTTTATAATCTCATAATAGATTTTAAGC

                        *   *  **        *              **              *  * 
       2169 TGAATTTTTTTAAATTTTTGGTTAAAACACACTAT-ATTGAATGTTTACCT-TAAGAAACGTGAA
          1 TGAATTTTTTTACATTCTTCATTAAAACAGACTATAATTGAATGCCTACCTCT-AGAAACATGTA

                   *                     *                    *        *   * 
       2232 GAAAAAAAT-ATTCATTG-GTAAGAAAAGGCCATTTATAGTCTCTCATTCTTTCAAAAGACTTGT
         65 G-AAAAACTCATTCATTGAG-AAGAAAAGTCCATTTATAGTCTCTCATTCCTTCAAAAGCCTTAT

                 *                           *       
       2295 TACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTA
        128 TACTCGCTTTAAATGGTTTTATAATCTCATAATAGATTTTA

       2336 GGTNNNNNNN


Statistics
Matches: 407,  Mismatches: 89, Indels: 27
        0.78            0.17        0.05

Matches are distributed among these distances:
 169    3  0.01
 170  103  0.25
 171  295  0.72
 172    6  0.01

ACGTcount: A:0.34, C:0.14, G:0.11, T:0.37


Consensus pattern (171 bp):   
TGAATTTTTTTACATTCTTCATTAAAACAGACTATAATTGAATGCCTACCTCTAGAAACATGTAG
AAAAACTCATTCATTGAGAAGAAAAGTCCATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTAC
TCGCTTTAAATGGTTTTATAATCTCATAATAGATTTTAAGC

Done.