Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398215.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_152.0, 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: 3754
ACGTcount: A:0.26, C:0.08, G:0.09, T:0.25

Warning! 1238 characters in sequence are not A, C, G, or T


Found at i:304 original size:171 final size:169

Alignment explanation


    Indices: 103--638  Score: 572
    Period size: 171  Copynumber: 3.1  Consensus size: 169

         93 NNNNNNNNNN

                                                *    *                       
        103 AGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTCGAAATGGACTTTTCTTCTCAATGAATGCT
          1 AGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTCTAAATAGACTTTTCTTCTCAATGAATGCT

                              *                       *       *              
        168 TGTTTCTTCATGTTTCTCAAGGTAAACATTGAATTATTGTATATTTTAATCAAAAATATAAAAAA
         66 T-TTTCTTCATGTTTCTCGAGGTAAACATT-AATTATTGTATGTTTTAATAAAAAATATAAAAAA

               *          *            **********    
        233 ATTTAACTTAAAATAAATTATGAGATTNNNNNNNNNNTTAA
        129 ATTCAACTTAAAATCAATTATGAGATTATAGAACTATTTAA

                              *    *           *                      **     
        274 AGCGAGTAATAAGCCTTTCGAAGAAATGGGTGACTATAAATAGACTTTTCTTCTCAATCCATGGC
          1 AGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTCTAAATAGACTTTTCTTCTCAATGAAT-GC

                   *         *   *  *              *  *               * *    
        339 TTTTTCTGCATGTTTCTTGAGTTAGACATTAATTATTGTCTGGTTTAA-AGAAAAATGTTTAAAA
         65 TTTTTCTTCATGTTTCTCGAGGTAAACATTAATTATTGTATGTTTTAATA-AAAAAT-ATAAAAA

                    *             *                   
        403 AATTCAACATAAAATCAATTATTAGATTATAGAACTATTTAA
        128 AATTCAACTTAAAATCAATTATGAGATTATAGAACTATTTAA

              *  *      * *            **                                    
        445 AGTGAATAATAAACTTTTTGAAGGAATTTGTGACTCTAAATAGACTTTGT-TTCTCAATGAATGC
          1 AGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTCTAAATAGACTTT-TCTTCTCAATGAATGC

                  *    *         *                *                          
        509 TTATTTTTTCACGTTTCTCGACGTAAACATTCAATTATAGTATGTTTTAATAAAAAATATAAAAA
         65 TT-TTTCTTCATGTTTCTCGAGGTAAACATT-AATTATTGTATGTTTTAATAAAAAATATAAAAA

                      **                   *          
        574 AATTCAACTTGCAATCAATTATGAGATTATAAAACTATTTAA
        128 AATTCAACTTAAAATCAATTATGAGATTATAGAACTATTTAA

              *                    
        616 AGTGAGTAATAAGCCTTTTGAAG
          1 AGCGAGTAATAAGCCTTTTGAAG

        639 NNNNNNNNNN


Statistics
Matches: 295,  Mismatches: 63, Indels: 14
        0.79            0.17        0.04

Matches are distributed among these distances:
 170   25  0.08
 171  243  0.82
 172   26  0.09
 173    1  0.00

ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37


Consensus pattern (169 bp):   
AGCGAGTAATAAGCCTTTTGAAGGAATGGGTGACTCTAAATAGACTTTTCTTCTCAATGAATGCT
TTTTCTTCATGTTTCTCGAGGTAAACATTAATTATTGTATGTTTTAATAAAAAATATAAAAAAAT
TCAACTTAAAATCAATTATGAGATTATAGAACTATTTAA
Done.