Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399553.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2809.0, 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: 7407
ACGTcount: A:0.21, C:0.07, G:0.08, T:0.20

Warning! 3260 characters in sequence are not A, C, G, or T


Found at i:520 original size:171 final size:161

Alignment explanation


    Indices: 278--585  Score: 309
    Period size: 171  Copynumber: 1.9  Consensus size: 161

        268 TTTGGAAAAA

                            *                         * *  *                *
        278 ATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTTTGTCACATTTCTTGAAGTAG
          1 ATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCATTGTCTGACACATTTCTTGAAGTAA

                        *          *        *       *   *  *                 
        343 ACATTCAATTATTGTCTGTTTTAGCCAAAAATGTAAAAAATTTTGA-TTCAAAATTAATTATGAG
         66 ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTTAACCT-AAAATTAATTATGAG

                                                      
        407 ATTATAAANNNNNNNNNNGCGAGTAATAAGGCTTTTGAAGAG
        130 ATTATAAA----------GCGAGTAATAAGGCTTTTGAAGAG

                                        *                        *   *       
        449 ATGGGTGACTATAAATAGACTTTTCTTGTCAATGAATGGC-TTAGTCT-ACACGTTTTTTG-AGA
          1 ATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT-GCATT-GTCTGACACATTTCTTGAAG-

                                       **                                 *  
        511 TAAACATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAAATTTAACCTAAAATTAATTTTG
         63 TAAACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTTAACCTAAAATTAATTATG

                      
        576 AGATTATAAA
        128 AGATTATAAA

        586 CCATTTAAAG


Statistics
Matches: 116,  Mismatches: 17, Indels: 8
        0.82            0.12        0.06

Matches are distributed among these distances:
 170    2  0.02
 171  109  0.94
 172    5  0.04

ACGTcount: A:0.36, C:0.10, G:0.15, T:0.36


Consensus pattern (161 bp):   
ATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGCATTGTCTGACACATTTCTTGAAGTAA
ACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAATTTAACCTAAAATTAATTATGAGA
TTATAAAGCGAGTAATAAGGCTTTTGAAGAG
Done.