Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398495.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1790.0, 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: 2478
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.28

Warning! 588 characters in sequence are not A, C, G, or T


Found at i:1860 original size:171 final size:168

Alignment explanation


    Indices: 1554--2159  Score: 515
    Period size: 171  Copynumber: 3.6  Consensus size: 168

       1544 NNNNNNNNNN

                 *              *         ** *                 *             
       1554 ATGAACACCTTTTTCTTCACATTTCTTAAGGTAAACATTCAATTATAATCTATTTTAA-TAAAAA
          1 ATGAATACCTTTTTCTTCACGTTTCTTAAGACAGACATTCAATTATAATCTGTTTTAACT-AAAA

                       *       **         *                      *  *      * 
       1618 ATGTAAAAAAAATCAACTTGCAATCAACTTTGAGATTATAAAACCATTTAAAGTGACTAATAAAA
         65 ATGTAAAAAAATTCAACTTAAAATCAA-TTAG-GATTAT-AAACCATTTAAAGCGAGTAATAAGA

                               *     *                
       1683 CTTTTGAAGGAATGGGTGACTATAAGTAGACTTTTCTTACCA
        127 CTTTTGAAGGAATGGGTGAATATAAATAGACTTTTCTTACCA

                             *             *   *           *                 
       1725 ATGAATACCTTTTTCTTTACGTTTCTTAAGATAGATATTCAATTATATTCTGTTTTAACTAAAAA
          1 ATGAATACCTTTTTCTTCACGTTTCTTAAGACAGACATTCAATTATAATCTGTTTTAACTAAAAA

                    *      *                                    *           *
       1790 TGTAAAAATATTCAAATTAAAATCAATTAGGTTATTATAACACC-TTTGAAAACGAGTAATAAGG
         66 TGTAAAAAAATTCAACTTAAAATCAATTAGG--ATTATAA-ACCATTT-AAAGCGAGTAATAAGA

                    *        *  *          *            
       1854 CTTTTGAAAGAATGGG-CAGTTATAAATAGATTTTTCTT-CTCA
        127 CTTTTGAAGGAATGGGTGA-ATATAAATAGACTTTTCTTAC-CA

              *   **                 *     *    *          *  *              
       1896 ATAAATGGCTTTTTCTAT-ACGTTTGTTAAGGCAGATATTCAATTATTATTTGTTTTAACTAAAA
          1 ATGAATACCTTTTTCT-TCACGTTTCTTAAGACAGACATTCAATTATAATCTGTTTTAACTAAAA

              *                 *            *******                         
       1960 ATATAAAAAAATTCAACTTAGAATCAATTANNNNNNNNNNAAACCATTTAAAGCGAGTAATAAGA
         65 ATGTAAAAAAATTCAACTTAAAATCAATTA---GGATTATAAACCATTTAAAGCGAGTAATAAGA

                          *           * *             
       2025 CTTTTGAAGGAATGAGTGAATATAAACAAACTTTTCTTACCA
        127 CTTTTGAAGGAATGGGTGAATATAAATAGACTTTTCTTACCA

                  **            *       *                                *   
       2067 ATGAATGTCTTTTT-TCTCAAGTTTCTTGAGACAGACATTCAATTATAATCTGTTTTAAC-CAAA
          1 ATGAATACCTTTTTCT-TCACGTTTCTTAAGACAGACATTCAATTATAATCTGTTTTAACTAAAA

                *    *   * *       *      
       2130 ATGTGAAAATATTTAGCTTAAAAACAATTA
         65 ATGTAAAAAAATTCAACTTAAAATCAATTA

       2160 TGAGGTTATA


Statistics
Matches: 349,  Mismatches: 71, Indels: 31
        0.77            0.16        0.07

Matches are distributed among these distances:
 169    1  0.00
 170   38  0.11
 171  301  0.86
 172    9  0.03

ACGTcount: A:0.39, C:0.12, G:0.11, T:0.36


Consensus pattern (168 bp):   
ATGAATACCTTTTTCTTCACGTTTCTTAAGACAGACATTCAATTATAATCTGTTTTAACTAAAAA
TGTAAAAAAATTCAACTTAAAATCAATTAGGATTATAAACCATTTAAAGCGAGTAATAAGACTTT
TGAAGGAATGGGTGAATATAAATAGACTTTTCTTACCA
Done.