Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398680.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1967.0, 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: 4125
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.20

Warning! 1754 characters in sequence are not A, C, G, or T


Found at i:371 original size:170 final size:170

Alignment explanation


    Indices: 1--406  Score: 419
    Period size: 170  Copynumber: 2.4  Consensus size: 170

                              *                                * *     *     
          1 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAGTAGGAGATTATAA
          1 AATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAA

                        *                     *  * *       **                
         66 ATGGAATTTTATTCCAAATAAATGAGTTTTTCTATACGTTTCCCAAGGTAAGCATTCAATTATAG
         66 ATGGAATTTTATGCCAAATAAATGAGTTTTTCTACACATCTCCCAAGACAAGCATTCAATTATAG

               *              *                     
        131 TCTGTTTTAATAAAAAATCTAAACAATTCAACTGAAAATC
        131 TCTATTTTAATAAAAAATATAAACAATTCAACTGAAAATC

                          **********       *               *                 
        171 AATTATGAGATTATNNNNNNNNNNAAAGCGACTAATAAGGCTTTTGAGGGAATGGGAGACTATAA
          1 AATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAA

                       *   *                             *      *            
        236 ATGG-ATGTTTCTGCTAAATAAATG-GATTTTTCTACACATCTCCTAAGACAGGCATTCAATTAT
         66 ATGGAAT-TTTATGCCAAATAAATGAG-TTTTTCTACACATCTCCCAAGACAAGCATTCAATTAT

                                            **           
        299 AG-CTCATTTTAATAAAAAATATAAA-ACATTTTACAT-AAAATC
        129 AGTCT-ATTTTAATAAAAAATATAAACA-ATTCAAC-TGAAAATC

                                                          *  *     *         
        341 AATTATGAGATTATAAAAACATTTAAAGCGAGTAAT-AGGACTTTTAAAAGAATGAGAGACTATA
          1 AATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAGG-CTTTTGAAGGAATGGGAGACTATA

              
        405 AA
         65 AA

        407 NNNNNNNNNN


Statistics
Matches: 186,  Mismatches: 44, Indels: 12
        0.77            0.18        0.05

Matches are distributed among these distances:
 169    9  0.05
 170  176  0.95
 171    1  0.01

ACGTcount: A:0.41, C:0.11, G:0.15, T:0.31


Consensus pattern (170 bp):   
AATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAA
ATGGAATTTTATGCCAAATAAATGAGTTTTTCTACACATCTCCCAAGACAAGCATTCAATTATAG
TCTATTTTAATAAAAAATATAAACAATTCAACTGAAAATC
Done.