Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400768.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3946.0, 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, 616

Length: 1027
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.33

Warning! 102 characters in sequence are not A, C, G, or T


Found at i:487 original size:171 final size:170

Alignment explanation


    Indices: 152--835  Score: 589
    Period size: 171  Copynumber: 4.0  Consensus size: 170

        142 NNNNNNNNNN

                     *  *   *  *         *  *               ** *        * *  
        152 TATTACTCGTTTTAAATTGTTTTATAATCCTAAAATAT-ATTTTAAGTCAAATTTTTTTACAATT
          1 TATTACTCGCTTCAAAATGATTTATAATCTTATAAT-TGATTTTAAGTTGATTTTTTTTATATTT

            *                                          *  *        **        
        216 ATGATTAAAA-AGACTATAATCGAATG-CTTACCTCGAGAAACGTGTAAAAAAA-CCATTCATTG
         65 TTG-TTAAAACAGACTATAATCGAATGTC-TACCTCGAGAAACATGGAAAAAAAGATATTCATTG

                                      *                  
        278 AGGAA-AAAAGTCCATTTATAGTCACGCA-TTCTTTCAAAAGCCT
        128 A-GAAGAAAAGTCCATTTATAGTCACCCATTTC-TTCAAAAGCCT

                       **********                *                           
        321 TATTACTCGCTNNNNNNNNNNTTATAATCTTATAATTAATTTTAAGTTGATTTTTTTTATAGTTT
          1 TATTACTCGCTTCAAAATGATTTATAATCTTATAATTGATTTTAAGTTGATTTTTTTTATA-TTT

               *       *                                                     
        386 TTGCTAAAACAAACTATAATCGAATGTCTACCTCGAGAAACATGGAAAAAAAGATATTCATTGAG
         65 TTGTTAAAACAGACTATAATCGAATGTCTACCTCGAGAAACATGGAAAAAAAGATATTCATTGAG

                                                 *   
        451 AAGAAAAGTCCATTTATAGTCACCCATTTCTTCAAAATCCT
        130 AAGAAAAGTCCATTTATAGTCACCCATTTCTTCAAAAGCCT

            *           **    *                        *       *             
        492 GATTACTCG-TTTTAAATTATTTCATAATCTTATAATTGATTTGAAGTTGAATTTTTTTATATTT
          1 TATTACTCGCTTCAAAATGATTT-ATAATCTTATAATTGATTTTAAGTTGATTTTTTTTATATTT

               *                  *  *          *                    *  *    
        556 TTAATTAAAACAGA-TAATAATTGACTGTCTACCT-TAGGAAACAT-GAAGAAAAAGGTAATCAT
         65 TT-GTTAAAACAGACT-ATAATCGAATGTCTACCTCGA-GAAACATGGAA-AAAAAGATATTCAT

                             *           *       *        
        618 TG-GCAAGAAAAGTCCAATTATAGTCACCTATTTCTTTAAAAGCCT
        126 TGAG-AAGAAAAGTCCATTTATAGTCACCCATTTCTTCAAAAGCCT

                            *  *       * ** *                         * *    
        663 TATTACTCGCTTCAAATTGTTTTATAACCCAAAAATTGATTTTAAGTTAGATTTTTTTGAAATTT
          1 TATTACTCGCTTCAAAATGATTTATAATCTTATAATTGATTTTAAGTT-GATTTTTTTTATATTT

             *                  *        *   *  *    *  *        *           
        728 TAGTTAAAACAGACTATAATTGAATGTCTGCCTTGAAAAACGTGCAAAAAAAGTTATTCATTGAG
         65 TTGTTAAAACAGACTATAATCGAATGTCTACCTCGAGAAACATGGAAAAAAAGATATTCATTGAG

                      *      *          *            
        793 AAGAAAAGTCTATTTATGGTCACCCATTCCTTCAAAAGCCT
        130 AAGAAAAGTCCATTTATAGTCACCCATTTCTTCAAAAGCCT

              
        834 TA
          1 TA

        836 NNNNNNNNNN


Statistics
Matches: 413,  Mismatches: 83, Indels: 36
        0.78            0.16        0.07

Matches are distributed among these distances:
 168    1  0.00
 169   47  0.11
 170   58  0.14
 171  277  0.67
 172   30  0.07

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


Consensus pattern (170 bp):   
TATTACTCGCTTCAAAATGATTTATAATCTTATAATTGATTTTAAGTTGATTTTTTTTATATTTT
TGTTAAAACAGACTATAATCGAATGTCTACCTCGAGAAACATGGAAAAAAAGATATTCATTGAGA
AGAAAAGTCCATTTATAGTCACCCATTTCTTCAAAAGCCT
Done.