Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399749.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2993.0, 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: 2197
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.26

Warning! 680 characters in sequence are not A, C, G, or T


Found at i:394 original size:171 final size:160

Alignment explanation


    Indices: 168--469  Score: 257
    Period size: 171  Copynumber: 1.8  Consensus size: 160

        158 NNNNNNNNNN

                 *            *                 **                           
        168 TAAAAGAGACTATAATTGGATGTTTACCTCGAGAAACATGAAGAAAAAGGCATTCATTGAAAAGA
          1 TAAAACAGACTATAATTGAATGTTTACCTCGAGAAATGTGAAGAAAAAGGCATTCATTGAAAAGA

                                         *     *  *                          
        233 AAAGTCCATTTATAGTGACCCATTGCTTCGAAAGCTTTGTTACTCGATTTAAATGGTTTTATAAT
         66 AAAGTCCATTTATAGTGACCCATT-CTTCAAAAGCCTTATTACTCGATTTAAATGGTTTTATAAT

                                                   ***
        298 CTCATAATT-AGTTTTAAGTTGAATTTTTNNNNNNNNNNNNN
        130 CTCATAATTGA-TTTTAAGTTGAATTTTT----------TCA

             *                     *      *   *           *             **   
        339 TCAAACAGACTATAATTGAATGTCTACCTCAAGAGATGTGAAGCAACAA-GCATTCATTGGCAAG
          1 TAAAACAGACTATAATTGAATGTTTACCTCGAGAAATGTGAAG-AAAAAGGCATTCATTGAAAAG

             *               *   * *                       *       *         
        403 ATAAGTCCATTTATAGTTACCTACTCTTTCAAAAGCCTTATTACTCGTTTTAAATAGTTTTATAA
         65 AAAAGTCCATTTATAGTGACCCATTC-TTCAAAAGCCTTATTACTCGATTTAAATGGTTTTATAA

              
        468 TC
        129 TC

        470 CAAAAATTGG


Statistics
Matches: 109,  Mismatches: 20, Indels: 4
        0.82            0.15        0.03

Matches are distributed among these distances:
 170    1  0.01
 171  104  0.95
 172    4  0.04

ACGTcount: A:0.34, C:0.14, G:0.14, T:0.33


Consensus pattern (160 bp):   
TAAAACAGACTATAATTGAATGTTTACCTCGAGAAATGTGAAGAAAAAGGCATTCATTGAAAAGA
AAAGTCCATTTATAGTGACCCATTCTTCAAAAGCCTTATTACTCGATTTAAATGGTTTTATAATC
TCATAATTGATTTTAAGTTGAATTTTTTCA
Done.