Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397519.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1337.0, 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: 10346
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.32

Warning! 568 characters in sequence are not A, C, G, or T


Found at i:1117 original size:31 final size:30

Alignment explanation


    Indices: 1060--1117  Score: 80
    Period size: 31  Copynumber: 1.9  Consensus size: 30

       1050 CATCATTTTA

                         *  * *           
       1060 ATGACATGGCATGTCATGTGGCACTATGTG
          1 ATGACATGGCATGCCACGAGGCACTATGTG

                                        
       1090 ATGACATGGCAATGCCACGAGGCACTAT
          1 ATGACATGGC-ATGCCACGAGGCACTAT

       1118 ACGATGATGC


Statistics
Matches: 24,  Mismatches: 3, Indels: 1
        0.86            0.11        0.04

Matches are distributed among these distances:
  30   10  0.42
  31   14  0.58

ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24


Consensus pattern (30 bp):   
ATGACATGGCATGCCACGAGGCACTATGTG

Found at i:1124 original size:31 final size:30

Alignment explanation


    Indices: 1060--1124  Score: 76
    Period size: 31  Copynumber: 2.1  Consensus size: 30

       1050 CATCATTTTA

                         *  * *        ** 
       1060 ATGACATGGCATGTCATGTGGCACTATGTG
          1 ATGACATGGCATGCCACGAGGCACTATACG

                                           
       1090 ATGACATGGCAATGCCACGAGGCACTATACG
          1 ATGACATGGC-ATGCCACGAGGCACTATACG

                
       1121 ATGA
          1 ATGA

       1125 TGCGGCATGC


Statistics
Matches: 29,  Mismatches: 5, Indels: 1
        0.83            0.14        0.03

Matches are distributed among these distances:
  30   10  0.34
  31   19  0.66

ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23


Consensus pattern (30 bp):   
ATGACATGGCATGCCACGAGGCACTATACG

Found at i:2439 original size:31 final size:31

Alignment explanation


    Indices: 2370--2461  Score: 100
    Period size: 31  Copynumber: 3.0  Consensus size: 31

       2360 ATTTTTTCAA

                                            
       2370 ATATTTTT-TTCAATTTAGTCCCTCA-ACATC
          1 ATATTTTTATTCAATTTAGTCCCT-ATACATC

            *  *                            
       2400 TTAATTTTATTCAATTTAGTCCCTATACTAT-
          1 ATATTTTTATTCAATTTAGTCCCTATAC-ATC

                       *      *            
       2431 ATATTTTTATTTAATTTAATCCCTATGACAT
          1 ATATTTTTATTCAATTTAGTCCCTAT-ACAT

       2462 GATAAATTTT


Statistics
Matches: 52,  Mismatches: 6, Indels: 7
        0.80            0.09        0.11

Matches are distributed among these distances:
  30    7  0.13
  31   41  0.79
  32    4  0.08

ACGTcount: A:0.29, C:0.17, G:0.03, T:0.50


Consensus pattern (31 bp):   
ATATTTTTATTCAATTTAGTCCCTATACATC
Done.