Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397692.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_582.0, 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, 614

Length: 1024
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.35

Warning! 40 characters in sequence are not A, C, G, or T


Found at i:310 original size:170 final size:169

Alignment explanation


    Indices: 5--610  Score: 614
    Period size: 171  Copynumber: 3.6  Consensus size: 169

          1 CGCT

                                       *                                     
          5 AATGAATGCTATTTTCTTCACATTTCTAGAGGTAAACATTCAATTATAG-CTTGTTTTAATAAAA
          1 AATGAATGCT-TTTTCTTCACATTTCTCGAGGTAAACATTCAATTATAGTC-TGTTTTAAT-AAA

                *               *               *               *   **    *  
         69 AAATATAAAA-ATATTCAACTTAAAATCAATTATTAAATTATAAAACCATTTGAAGTTAGTATTA
         63 AAATGTAAAACA-ATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAATA

            *         **********                        
        133 TGGCTTTTGANNNNNNNNNNGACTATAAATGAACTTTTCTTGTC
        127 AGGCTTTTGAAGAAAGAGAGGA-TATAAATGAACTTTTCTTGTC

                                *     * *  *   *                 *           
        177 AATGAATGCTTTTTCTTCACGTTTCTTGGGGCAAATATTCAATTATAGTCTGTATTAATAAAAAA
          1 AATGAATGCTTTTTCTTCACATTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAATAAAAAA

                                          *      *                           
        242 TGTAAAACAATTCAACCTAAAATCAATTATGAGATTAGAAAACCATTTAAAGCGAGTAATAAGGC
         66 TGTAAAACAATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAATAAGGC

                       *                 *            
        307 TTTTGAAGGAATG-G-GTGATTATAAATGGACTTTTCTTGTC
        131 TTTTGAA-GAAAGAGAG-GA-TATAAATGAACTTTTCTTGTC

                   *                    *  *      *        *             *   
        347 AATGAATACTTTTGTCTTCACATTTCTCAAGATAAACAGTCAATTATTGTCTGTTTTAA-ATAAA
          1 AATGAATGCTTTT-TCTTCACATTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAATAAAAA

                     *        *       *                         *            
        411 ATGTGAAAAAAATTCAACTTAAAATCTATTATTAGATTATAAAACCATTTAATGCGAGTAATAAG
         65 ATGT-AAAACAATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAATAAG

                  *      *                         *   
        476 GCTTTTAAATGAATGAGAGGATATAAAT-AGACTTTTCTCGTC
        129 GCTTTTGAA-GAAAGAGAGGATATAAATGA-ACTTTTCTTGTC

                  *           *  *              *   *                    *   
        518 AATGAAAGCCTTTTTCTTAACGTTTCTCGAGGTAAATATTTAATTATAGTCTGTTTTAAT-CAAA
          1 AATGAATG-CTTTTTCTTCACATTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAATAAAAA

                                         
        582 ATGTAAAACAATTCAACCTAAAATCAATT
         65 ATGTAAAACAATTCAACCTAAAATCAATT

        611 NNNNNNNNNN


Statistics
Matches: 361,  Mismatches: 62, Indels: 24
        0.81            0.14        0.05

Matches are distributed among these distances:
 170  129  0.36
 171  212  0.59
 172   19  0.05
 173    1  0.00

ACGTcount: A:0.38, C:0.12, G:0.12, T:0.36


Consensus pattern (169 bp):   
AATGAATGCTTTTTCTTCACATTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAATAAAAAA
TGTAAAACAATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAATAAGGC
TTTTGAAGAAAGAGAGGATATAAATGAACTTTTCTTGTC

Done.