Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399456.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_272.0, 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: 7122
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.25

Warning! 1996 characters in sequence are not A, C, G, or T


Found at i:2087 original size:17 final size:17

Alignment explanation


    Indices: 2054--2113  Score: 54
    Period size: 17  Copynumber: 3.5  Consensus size: 17

       2044 TCCACTACCA

                         *    
       2054 AGAAGAAA-AGAGAAAGG
          1 AGAAGAAAGA-AGGAAGG

                             
       2071 AGAAGAAAGAAGGAAGG
          1 AGAAGAAAGAAGGAAGG

                  *            
       2088 -GAATGGAAGAAAGGAAGG
          1 AGAA-GAAAG-AAGGAAGG

                     
       2106 A-AAGAAAG
          1 AGAAGAAAG

       2114 GGAGAAAGGA


Statistics
Matches: 36,  Mismatches: 3, Indels: 8
        0.77            0.06        0.17

Matches are distributed among these distances:
  16    3  0.08
  17   22  0.61
  18   11  0.31

ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02


Consensus pattern (17 bp):   
AGAAGAAAGAAGGAAGG

Found at i:2119 original size:21 final size:22

Alignment explanation


    Indices: 2061--2124  Score: 69
    Period size: 21  Copynumber: 2.9  Consensus size: 22

       2051 CCAAGAAGAA

                                    
       2061 AAGAGAAAGGAGAAGAAA-GAAGG
          1 AAGAGAAAGG-G-AGAAAGGAAGG

               *   *  *           
       2084 AAGGGAATGGAAGAAAGGAAGG
          1 AAGAGAAAGGGAGAAAGGAAGG

                                
       2106 AA-AGAAAGGGAGAAAGGAA
          1 AAGAGAAAGGGAGAAAGGAA

       2125 AAAGGAGAAA


Statistics
Matches: 34,  Mismatches: 6, Indels: 4
        0.77            0.14        0.09

Matches are distributed among these distances:
  21   19  0.56
  22    7  0.21
  23    8  0.24

ACGTcount: A:0.58, C:0.00, G:0.41, T:0.02


Consensus pattern (22 bp):   
AAGAGAAAGGGAGAAAGGAAGG

Found at i:2134 original size:14 final size:15

Alignment explanation


    Indices: 2114--2146  Score: 50
    Period size: 16  Copynumber: 2.2  Consensus size: 15

       2104 GGAAAGAAAG

                           
       2114 GGAGAAAG-GAAAAA
          1 GGAGAAAGAGAAAAA

                            
       2128 GGAGAAAGAAGAAAAA
          1 GGAGAAAG-AGAAAAA

               
       2144 GGA
          1 GGA

       2147 AAGGGAGGGT


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  14    8  0.47
  16    9  0.53

ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00


Consensus pattern (15 bp):   
GGAGAAAGAGAAAAA
Done.