Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399189.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2459.0, 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: 5667
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.17

Warning! 3159 characters in sequence are not A, C, G, or T


Found at i:3593 original size:170 final size:170

Alignment explanation


    Indices: 3293--3614  Score: 434
    Period size: 170  Copynumber: 1.9  Consensus size: 170

       3283 NNNNNNNNNN

                        *              *   *                                 
       3293 TTAAATAGTTTTGTAATCTCATAAATGGTTTTAAGTTGAAATTTTTCACATTTTTGGTTAAAACA
          1 TTAAATAGTTTTATAATCTCATAAATGATTTCAAGTTGAAATTTTTCACATTTTT-GTTAAAACA

                       *          *                           *       *      
       3358 GACTATAATTGGATGTCTACCTTAAGAAAAGCGAAGAAAAAGACATTCATTGGAAAGAGAAGTCC
         65 GACTATAATTGAATGTCTACCTCAAGAAAAGCGAAGAAAAAGACATTCATAGGAAAGAAAAGTCC

                                                     
       3423 ATTTATAGTGACCCATTCCTTCAAAAGCTTTATTACTTGAA
        130 ATTTATAGTGACCCATTCCTTCAAAAGCTTTATTACTTGAA

                                    *                *     ***             * 
       3464 TTAAATAGTTTTATAATCTCATAATTGATTTCAAGTTGAATTTTTTTTGTATTTTT-TTAAAAGA
          1 TTAAATAGTTTTATAATCTCATAAATGATTTCAAGTTGAA-ATTTTTCACATTTTTGTTAAAACA

                                   *     * *                                 
       3528 GACTATAATTGAATGTCTACCTCGAGAAACGTGAAGAAAAAG-CTATTCATAGTG-AAGAAAAGT
         65 GACTATAATTGAATGTCTACCTCAAGAAAAGCGAAGAAAAAGAC-ATTCATAG-GAAAGAAAAGT

                       *            
       3591 CCATTTATAGTTACCCATTCCTTC
        128 CCATTTATAGTGACCCATTCCTTC

       3615 NNNNNNNNNN


Statistics
Matches: 131,  Mismatches: 17, Indels: 7
        0.85            0.11        0.05

Matches are distributed among these distances:
 169    1  0.01
 170   82  0.63
 171   37  0.28
 172   11  0.08

ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37


Consensus pattern (170 bp):   
TTAAATAGTTTTATAATCTCATAAATGATTTCAAGTTGAAATTTTTCACATTTTTGTTAAAACAG
ACTATAATTGAATGTCTACCTCAAGAAAAGCGAAGAAAAAGACATTCATAGGAAAGAAAAGTCCA
TTTATAGTGACCCATTCCTTCAAAAGCTTTATTACTTGAA

Found at i:3600 original size:21 final size:21

Alignment explanation


    Indices: 3558--3601  Score: 54
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       3548 CTCGAGAAAC

                         *       
       3558 GTGAAGAAAAAGCTATTCATA
          1 GTGAAGAAAAAGCCATTCATA

                              *   
       3579 GTGAAG-AAAAGTCCATTTATA
          1 GTGAAGAAAAAG-CCATTCATA

              
       3600 GT
          1 GT

       3602 TACCCATTCC


Statistics
Matches: 20,  Mismatches: 2, Indels: 2
        0.83            0.08        0.08

Matches are distributed among these distances:
  20    5  0.25
  21   15  0.75

ACGTcount: A:0.43, C:0.09, G:0.20, T:0.27


Consensus pattern (21 bp):   
GTGAAGAAAAAGCCATTCATA
Done.