Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399970.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3197.0, 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: 6000
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.25

Warning! 1787 characters in sequence are not A, C, G, or T


Found at i:1537 original size:171 final size:171

Alignment explanation


    Indices: 1010--2234  Score: 911
    Period size: 170  Copynumber: 7.2  Consensus size: 171

       1000 NNNNNNNNNN

                                  *                *          *        *   **
       1010 TTAGTTTATAAAACCATTTAAACCAAGTAATAAGGCTTTCGAAGGCT-TGAGT-ACTTACAAAAA
          1 TTAGTTTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGG-TATGGGTGAC-TATAAATG

            *       *        ** **     *      *    ***   *   *        *      
       1073 AACTTTTCATGCCAATGGTTGGCTTTTGCTTCA-CTTTCCCAAGGAAGATATTCAATTGTAG-CA
         64 GACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTC-

             *       *                    *              
       1136 TTTTTTAACCAAAAATGTGAAAAA-ATTCATCTTAAAATCAATTA
        128 TGTTTTAACTAAAAATGT-AAAAAGATTCAACTTAAAATCAATTA

             * ** *                **           **********                   
       1180 TGACATCATAAAACCATTTAAAGTGAGTAATAAGGCNNNNNNNNNNATGGGTGACTATAAATGGA
          1 TTAGTTTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGA

                      **                           *             *      *    
       1245 CTTTTCTTGCTGATGAATACC-TTTTCTTCATGCTTT-TCGAGGTAGACATTCTATTATAATCTG
         66 CTTTTCTTGCCAATGAATACCTTTTTCTTCATG-TTTCTTGAGGTAGACATTCAATTATAGTCTG

                   *      * *   *                     
       1308 TTTTAACCAAAAATATGAAACGATTCAACTTAAAATCAATTA
        130 TTTTAACTAAAAATGTAAAAAGATTCAACTTAAAATCAATTA

             * ** *           * *   *  *                                     
       1350 TGACATCATAAAACCATTCAGAGCGAGCAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGA
          1 TTAGTTTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGA

               *              *                                     *        
       1415 CTTGTCTTGCCAATGAATTCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCTGT
         66 CTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGT

                  *             * * *         **     
       1480 TTTAACCAAAAATGTAAAAATACTGAACTTAAAAAGAATTA
        131 TTTAACTAAAAATGTAAAAAGATTCAACTTAAAATCAATTA

                                  *                *                  *      
       1521 TTAGTTTATAAAACCATTTAAACCAAGTAATAAGGCTTTCGAAGGCT-TGGGTGACTACAAATGG
          1 TTAGTTTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGG-TATGGGTGACTATAAATGG

                   *        ** **     *     *   * ***   *            *   *  *
       1585 ACTTTTCGTGCCAATGGTTGGCTTTTGCTTCACGTTCCCCAAGGCAGACATTCAATTGTAGCCTT
         65 ACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTG

                                                      
       1650 TTTTAACTAAAAATGTAAAAAGATTCAACTTAAAATCAATT-
        130 TTTTAACTAAAAATGTAAAAAGATTCAACTTAAAATCAATTA

                 *    *            ***                    *                * 
       1691 TTGAGATTATTAAACCATTTAAATTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAG
          1 TT-AGTTTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGG

                        *                                   *           *    
       1756 ACTTTTCTTGCCGATGAATACC-TTTTCTTCATGTTTCTTGAGGTAGAAATTCAATTATAATCTG
         65 ACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTG

                      *     * *                     * 
       1820 TTTTAACTAAGAATGTGAGAAGATTCAACTTAAAATCAATAA
        130 TTTTAACTAAAAATGTAAAAAGATTCAACTTAAAATCAATTA

            ** *  *       *                                         *      * 
       1862 CGACTTCATAAAACTATTTAAAGCAAGTAATAAGGC-TTTGCAA-GTATGGGTGACCATAAATAG
          1 TTAGTTTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTG-AAGGTATGGGTGACTATAAATGG

                          *     * *                     *             *      
       1925 ACTTTTCTAT-CCAGTGAATGCTTTTTTCTTCATGTTTCTTGAGATAGACATTCAATTCTAGTCT
         65 ACTTTTCT-TGCCAATGAATACCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCT

                           *      * **          *      
       1989 G-TTTAACTAAAAATATAAAAATACCCAACTTAAAAACAATTA
        129 GTTTTAACTAAAAATGTAAAAAGATTCAACTTAAAATCAATTA

                          *       *       *         * *        *             
       2031 TTAGTTTATAAAACTATTTAAACCTAA-TATTAAGGCTTTCGGAGGCT-TGAGTGACTATAAATG
          1 TTAGTTTATAAAACCATTTAAAGC-AAGTAATAAGGCTTTTGAAGG-TATGGGTGACTATAAATG

              *     *        ** **     **    *     *** * *            *   *  
       2094 GATTTTTCGTGCCAATGGGTGGCTTTTGGTTCACG-TTCCCCAAGCAGACATTCAATTGTAGCCT
         64 GACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCT

            *       *    *        *       *            
       2158 TTTTTAACCAAAATTGTAAAAATATTCAACGTAAAATCAATT-
        129 GTTTTAACTAAAAATGTAAAAAGATTCAACTTAAAATCAATTA

                 *         *        **         
       2200 TTGAGATTATAAAACTATTTAAAGTGAGTAATAAG
          1 TT-AGTTTATAAAACCATTTAAAGCAAGTAATAAG

       2235 NNNNNNNNNN


Statistics
Matches: 824,  Mismatches: 208, Indels: 46
        0.76            0.19        0.04

Matches are distributed among these distances:
 169  134  0.16
 170  411  0.50
 171  278  0.34
 172    1  0.00

ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34


Consensus pattern (171 bp):   
TTAGTTTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGA
CTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGT
TTTAACTAAAAATGTAAAAAGATTCAACTTAAAATCAATTA
Done.