Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400172.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3390.0, 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: 1968
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.30

Warning! 333 characters in sequence are not A, C, G, or T


Found at i:1095 original size:172 final size:161

Alignment explanation


    Indices: 908--1217  Score: 327
    Period size: 172  Copynumber: 1.9  Consensus size: 161

        898 NNNNNNNNNN

                                             *  ***   *                      
        908 ACTTAAAATCAATTATGAAATTATAAAACCATTTAACGTAAGTAATAAGACTTTTGAAAGAAT-G
          1 ACTTAAAATCAATTATGAAATTATAAAACCATTGAAAACAAGAAATAAGACTTTTGAAAGAATAG

               *   *             *               *                           
        972 AGTGACTGTAAATGGACTTTTTTTGCCAATGAATGCTTTTTTTCTTCACGTATCTCT-AGGTAGA
         66 -GTAACTATAAATGGACTTTTCTTGCCAATGAATGC-CTTTTTCTTCACGTATCT-TAAGGTAGA

                                                        
       1036 CATTCAATTATAATCTGTTTAAGCCAAAAATGNNNNNNNNNNTA
        128 CATTCAATTATAATCTGTTTAAGCCAAAAATG----------TA

                            * *                              *           *   
       1080 ACTTAAAATCAATTATTAGATTATAAAACCATTGAAAACAAGAAATAAGGCTTTTGAAAGACTAG
          1 ACTTAAAATCAATTATGAAATTATAAAACCATTGAAAACAAGAAATAAGACTTTTGAAAGAATAG

                                     * *                 * * *               
       1145 GTAACTATAAATGGACTTTTCTTGCTAGTGAATGCCTTTTTCTTCTCTTTTCTTAAGGTAGACAT
         66 GTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTATCTTAAGGTAGACAT

                    
       1210 TCAATTAT
        131 TCAATTAT

       1218 TTTCTATTTT


Statistics
Matches: 118,  Mismatches: 18, Indels: 5
        0.84            0.13        0.04

Matches are distributed among these distances:
 170    1  0.01
 171   32  0.27
 172   84  0.71
 173    1  0.01

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


Consensus pattern (161 bp):   
ACTTAAAATCAATTATGAAATTATAAAACCATTGAAAACAAGAAATAAGACTTTTGAAAGAATAG
GTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTATCTTAAGGTAGACAT
TCAATTATAATCTGTTTAAGCCAAAAATGTA
Done.