Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402570.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5642.0, 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: 2194
ACGTcount: A:0.11, C:0.40, G:0.40, T:0.09


Found at i:768 original size:21 final size:21

Alignment explanation


    Indices: 743--830  Score: 140
    Period size: 21  Copynumber: 4.2  Consensus size: 21

        733 TCGAGCAGCG

                                 
        743 CCGCTCCGGGCACGTCGGCGC
          1 CCGCTCCGGGCACGTCGGCGC

                                 
        764 CCGCTCCGGGCACGTCGGCGC
          1 CCGCTCCGGGCACGTCGGCGC

                *                
        785 CCGCCCCGGGCACGTCGGCGC
          1 CCGCTCCGGGCACGTCGGCGC

                **  *            
        806 CCGCAGCGAGCACGTCGGCGC
          1 CCGCTCCGGGCACGTCGGCGC

                
        827 CCGC
          1 CCGC

        831 GGCGAGCACG


Statistics
Matches: 63,  Mismatches: 4, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  21   63  1.00

ACGTcount: A:0.07, C:0.49, G:0.38, T:0.07


Consensus pattern (21 bp):   
CCGCTCCGGGCACGTCGGCGC

Found at i:835 original size:21 final size:21

Alignment explanation


    Indices: 743--840  Score: 115
    Period size: 21  Copynumber: 4.7  Consensus size: 21

        733 TCGAGCAGCG

                *   *            
        743 CCGCTCCGGGCACGTCGGCGC
          1 CCGCACCGAGCACGTCGGCGC

                *   *            
        764 CCGCTCCGGGCACGTCGGCGC
          1 CCGCACCGAGCACGTCGGCGC

                *   *            
        785 CCGCCCCGGGCACGTCGGCGC
          1 CCGCACCGAGCACGTCGGCGC

                 *               
        806 CCGCAGCGAGCACGTCGGCGC
          1 CCGCACCGAGCACGTCGGCGC

                **        
        827 CCGCGGCGAGCACG
          1 CCGCACCGAGCACG

        841 ACGACCGCCC


Statistics
Matches: 72,  Mismatches: 5, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  21   72  1.00

ACGTcount: A:0.08, C:0.47, G:0.39, T:0.06


Consensus pattern (21 bp):   
CCGCACCGAGCACGTCGGCGC

Done.