Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399807.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3046.1, 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, 768

Length: 1281
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.36

Warning! 103 characters in sequence are not A, C, G, or T


Found at i:1240 original size:169 final size:170

Alignment explanation


    Indices: 542--1281  Score: 565
    Period size: 170  Copynumber: 4.3  Consensus size: 170

        532 GTGAAGAGAT

                                 *              * *    *                   * 
        542 AGATATCCATTGGCAAGAAAAATCCATTTATAGTCATCTATGCTTTCGAAAGCCTTATTACTCGC
          1 AGATATCCATT-GCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCGAAAGCCTTATTACTCAC

                        **********                         *             * **
        607 TTTAAATGATTTNNNNNNNNNNTAATTGATTTTAATTTAAATTTTTTTATA-TTTTTATTATATC
         65 TTTAAATGATTTTATAATCTCATAATTGATTTTAATTTAAATTTTTTAATATTTTTTATTAAAAA

            *         *      *      *         *  *   *
        671 GGATTATAATAGAATGTCTACCTCGAGAAACGA-GAAGAAAT
        130 AGATTATAATTGAATGTATACCTCAAGAAAC-ATAAACAAAA

                *********                       *          *                 
        712 AGANNNNNNNNNNCAAGAAAAGTCCATTTATAGTCATCCATGCCTTCTAAAGCCTTATTACTCTA
          1 AGA-TATCCATTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCGAAAGCCTTATTACTC-A

                  *  *       **                 *           *          *     
        777 C-TTAATTGTTTTTATAGCCTCATAATTGATTTTAAGTTAAATTTTTTTATATTTTTTAATAAAA
         64 CTTTAAATGATTTTATAATCTCATAATTGATTTTAATTTAAATTTTTTAATATTTTTTATTAAAA

            *           *     * *           *         
        841 CAGATTATAATTAAATGTTTTCCTCAAGAAACGTAAACAAAA
        129 AAGATTATAATTGAATGTATACCTCAAGAAACATAAACAAAA

                  *                     *                       ********** * 
        883 AGATATTCATTGACAAG-AAAGTCCATTCATAGTCACCCATGCCTTCGAAAGNNNNNNNNNNCGC
          1 AGATATCCATTG-CAAGAAAAGTCCATTTATAGTCACCCATGCCTTCGAAAGCCTTATTACTCAC

                                            *     *                          
        947 TTTAAATGATTTTATAATCTCATAATTGATTTAAATTTGAATTTTTTAATATTTTTTATTAAAAA
         65 TTTAAATGATTTTATAATCTCATAATTGATTTTAATTTAAATTTTTTAATATTTTTTATTAAAAA

             *               * *    *      **********
       1012 ATATTATAATTGAATGTCTGCCTCGAGAAACNNNNNNNNNN
        130 AGATTATAATTGAATGTATACCTCAAGAAACATAAACAAAA

                                                  * *             *          
       1053 AGATATCCATTGGCAAGAAAAGTCCA-TT-TAGTCACCTAAGCCTTCGAAAGCCATATTACTCAC
          1 AGATATCCATT-GCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCGAAAGCCTTATTACTCAC

                              *                                *     *       
       1116 TTTAAATGATTTTATAATTTCATAATTGATTTTAATTTAAATTTTTTAATAATTTTTGTTAAAAA
         65 TTTAAATGATTTTATAATCTCATAATTGATTTTAATTTAAATTTTTTAATATTTTTTATTAAAAA

                                    *     *  *  *    
       1181 AGATTATAATTGAATGTATACCTCTAGAAATATGAAGAAAA
        130 AGATTATAATTGAATGTATACCTCAAGAAACATAAACAAAA

                 *                                         *            
       1222 AGATACCCATTAGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTA
          1 AGATATCCATT-GCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCGAAAGCCTTATTA


Statistics
Matches: 431,  Mismatches: 129, Indels: 19
        0.74            0.22        0.03

Matches are distributed among these distances:
 169  133  0.31
 170  215  0.50
 171   83  0.19

ACGTcount: A:0.35, C:0.13, G:0.10, T:0.36


Consensus pattern (170 bp):   
AGATATCCATTGCAAGAAAAGTCCATTTATAGTCACCCATGCCTTCGAAAGCCTTATTACTCACT
TTAAATGATTTTATAATCTCATAATTGATTTTAATTTAAATTTTTTAATATTTTTTATTAAAAAA
GATTATAATTGAATGTATACCTCAAGAAACATAAACAAAA
Done.