Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400629.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3819.0, 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: 5388
ACGTcount: A:0.22, C:0.09, G:0.10, T:0.22

Warning! 1941 characters in sequence are not A, C, G, or T


Found at i:5083 original size:174 final size:160

Alignment explanation


    Indices: 4896--5229  Score: 361
    Period size: 174  Copynumber: 2.0  Consensus size: 160

       4886 NNNNNAATAA

                  *                                              *          *
       4896 GGCTTTTGAAGGCATCG-GTGACTATAAATGGACTTGT-CTTACAAATGAATGGCTTTTTCTTCG
          1 GGCTTTCGAAGGCAT-GAGTGACTATAAATGGACTT-TACTTACAAATGAATGACTTTTTCTTCA

                                                    *                        
       4959 CGTTTCTTGAGGTAGAGATTTAATTATA-ATCAATTTGAACCAAAAATGCAAAAAAAAAATTCAA
         64 CGTTTCTTGAGGTAGAGATTTAATTATATATC-ATTTGAAAC-AAAATG--AAAAAAAAATTC-A

                   *       *                      
       5023 CTTAAAATTAA-TTATGAGATTATAAAACCATTTAAAG
        124 CTT-AAAGTAAGTTACGAGATTATAAAACCATTTAAAG

                                                              * *            
       5060 NNNNNNNNNNGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTACTTGCCAATGAATGACTT
          1 ----------GGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTACTTACAAATGAATGACTT

                                    *            *      *               *  * 
       5125 TTTCTTCACGTTTCTTGAGGTAGATATTTAATTATATTTCATTTTAAACAAAATGAAAAATAATT
         56 TTTCTTCACGTTTCTTGAGGTAGAGATTTAATTATATATCATTTGAAACAAAATGAAAAAAAAAT

                                                    
       5190 TCACTTAAAGTAAGTTACGAGATTATAAAACCATTTAAAG
        121 TCACTTAAAGTAAGTTACGAGATTATAAAACCATTTAAAG

       5230 TAAGTAATAA


Statistics
Matches: 143,  Mismatches: 13, Indels: 12
        0.85            0.08        0.07

Matches are distributed among these distances:
 169    6  0.04
 170   29  0.20
 171   10  0.07
 173    8  0.06
 174   88  0.62
 175    2  0.01

ACGTcount: A:0.36, C:0.12, G:0.15, T:0.34


Consensus pattern (160 bp):   
GGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTACTTACAAATGAATGACTTTTTCTTCACG
TTTCTTGAGGTAGAGATTTAATTATATATCATTTGAAACAAAATGAAAAAAAAATTCACTTAAAG
TAAGTTACGAGATTATAAAACCATTTAAAG
Done.