Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397700.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1.0, 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: 7621
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.26

Warning! 2388 characters in sequence are not A, C, G, or T


Found at i:5669 original size:16 final size:15

Alignment explanation


    Indices: 5648--5677  Score: 51
    Period size: 16  Copynumber: 1.9  Consensus size: 15

       5638 AATTTATTTT

                            
       5648 AATAAAAATATAAAAA
          1 AATAAAAAT-TAAAAA

                          
       5664 AATAAAAATTAAAA
          1 AATAAAAATTAAAA

       5678 TCAATTATGA


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    5  0.36
  16    9  0.64

ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20


Consensus pattern (15 bp):   
AATAAAAATTAAAAA

Found at i:6701 original size:171 final size:170

Alignment explanation


    Indices: 6329--6783  Score: 455
    Period size: 171  Copynumber: 2.7  Consensus size: 170

       6319 NNNNNNNNNN

                        *                                      *       *     
       6329 AAACTAATTATGGGATTAAAAAATCATTTAAAGCGAGTAATAAGGCTTTCGTAGGCATGAGTGAC
          1 AAACTAATTATGAGATTAAAAAATCATTTAAAGCGAGT-ATAAGGCTTTCGAAGGCATGGGTGAC

              *                                              *             * 
       6394 TAAAAATGGACTTTTCTTGCCAATTGATATCTTTTTCTTCACGTTTCTTGAGGAAAACATTCATT
         65 TATAAATGGACTTTTCTTGCCAATTGATATCTTTTTCTTCACGTTTCTTAAGGAAAACATTCAAT

                  *                                  
       6459 TATAATTTATTTTAATAAAAACTATAAAAAAATTTAAATTA
        130 TATAATCTATTTTAATAAAAACTATAAAAAAATTTAAATTA

                     ***********                                    *       *
       6500 AAA-TCAATNNNNNNNNNNTAAAATCATTTAAAGCGAGTAGTAAGGCTTTCGAAGGTATGGGTGG
          1 AAACT-AATTATGAGATTAAAAAATCATTTAAAGCGAGTA-TAAGGCTTTCGAAGGCATGGGTGA

                    *           *                   *             *          
       6564 CTATAAATAGACTTTTCTTGGCAATTGATATCTTTTTCTTAACGTTTCTTAAGGTAAACATTCAA
         64 CTATAAATGGACTTTTCTTGCCAATTGATATCTTTTTCTTCACGTTTCTTAAGGAAAACATTCAA

                     *                  ********** *   
       6629 TTATAATCTGTTTTAATAACAAA-TATANNNNNNNNNNACTTA
        129 TTATAATCTATTTTAATAA-AAACTATAAAAAAATTTAAATTA

                                   *         *                        *      
       6671 AAACTAATTATGAGATTAAAAAAGCATTTAAAGTGAGTCATAAGGCTTTCGAAGGCATAGGTGAC
          1 AAACTAATTATGAGATTAAAAAATCATTTAAAGCGAGT-ATAAGGCTTTCGAAGGCATGGGTGAC

                        *     *     *       *        *      
       6736 TATAAATGGACTATTCTTACCAATGGATATCTATTTCTTCATGTTTCT
         65 TATAAATGGACTTTTCTTGCCAATTGATATCTTTTTCTTCACGTTTCT

       6784 NNNNNNNNNN


Statistics
Matches: 220,  Mismatches: 59, Indels: 10
        0.76            0.20        0.03

Matches are distributed among these distances:
 170    2  0.01
 171  213  0.97
 172    5  0.02

ACGTcount: A:0.35, C:0.11, G:0.14, T:0.35


Consensus pattern (170 bp):   
AAACTAATTATGAGATTAAAAAATCATTTAAAGCGAGTATAAGGCTTTCGAAGGCATGGGTGACT
ATAAATGGACTTTTCTTGCCAATTGATATCTTTTTCTTCACGTTTCTTAAGGAAAACATTCAATT
ATAATCTATTTTAATAAAAACTATAAAAAAATTTAAATTA
Done.