Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397643.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5495.0, 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: 2884
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.20

Warning! 1316 characters in sequence are not A, C, G, or T


Found at i:890 original size:171 final size:168

Alignment explanation


    Indices: 574--1311  Score: 622
    Period size: 171  Copynumber: 4.3  Consensus size: 168

        564 NNNNNNNNNN

                  *  *          *     * *     *   * *                        
        574 TTACTCACTGTAAATAGTTTCATAATGTCATAATCGATATGAAGTTGAATTGTTTTACATTTTTC
          1 TTACTCGCTTTAAATAGTTTTATAATCTAATAATTGATTTTAAGTTGAATT-TTTTACATTTTTC

                        *                   *      *                *      * 
        639 ATTAAAATAGACAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAACA-CATCCATTGGCA
         65 ATTAAAATAGACTATAATTGAATGTCTACCT-GAGAAACGTGAAGAAAAA-AGCATTCATTGGTA

                  *  *        * *      *         *    
        703 AGAAAAGTCCATTTATAGTCACCCATTTTTTCAAAAGTCTTA
        128 A-AAAAATCTATTTATAGCCTCCCATTCTTTCAAAAGCCTTA

                                                                             
        745 TTACTCGCTTTAAATAG-TTTATAATCTAATAATTGATTTTAAGTTGAAATTTTTTACATTTTTT
          1 TTACTCGCTTTAAATAGTTTTATAATCTAATAATTGATTTTAAGTTG-AATTTTTTACA-TTTTT

            *                                  *                          *  
        809 TATTAAAATAGACTATAATTGAATGTCTACCATGACAAACGTGAAGAAAAAAGCATTCATTGATA
         64 CATTAAAATAGACTATAATTGAATGTCTACC-TGAGAAACGTGAAGAAAAAAGCATTCATTGGTA

                                     *  *   * *      *
        874 ACAAAAATCTATTTATAGCCTCCCAGTCCTTCTACAGCCTTT
        128 A-AAAAATCTATTTATAGCCTCCCATTCTTTCAAAAGCCTTA

                                         *      *                           *
        916 TTACTC-CTTTTAAATAGTTTTATAATCTCATAATTAATTTTAAG-TGCAATCTTTTTACATTTC
          1 TTACTCGC-TTTAAATAGTTTTATAATCTAATAATTGATTTTAAGTTG-AAT-TTTTTACATTTT

                        *                 * *       *  *                     
        979 TCATTAAAATAGGCTATAATTGAATGTCTGGCTTGAGAAAAGTTAAGAAAAAAGCATTCATTGGT
         63 TCATTAAAATAGACTATAATTGAATGTCT-ACCTGAGAAACGTGAAGAAAAAAGCATTCATTGGT

                             * *                  *     
       1044 AAAAAAATTCTATTTATTGGCTCCCATTCCTTT-AAAAACCTTA
        127 AAAAAAA-TCTATTTATAGCCTCCCATT-CTTTCAAAAGCCTTA

                 *         *                 **********                     *
       1087 TTACTTGCTTTAAATGGTTTTATAATCTAATAANNNNNNNNNNGTTGAATTCTTTTACATTTTTT
          1 TTACTCGCTTTAAATAGTTTTATAATCTAATAATTGATTTTAAGTTGAATT-TTTTACATTTTTC

                   *    *        *      **         * *   **     *     *   *  
       1152 ATTAAAACAGACAATAATTGACTGTCTATATCGAGAAACATCAAGTCAAAAGTATTCAATGGCAA
         65 ATTAAAATAGACTATAATTGAATGTCTACCT-GAGAAACGTGAAGAAAAAAGCATTCATTGGTAA

            *   *       *       *     *    *        
       1217 GAAAGTCTATTTTTAGCCTCTCATTCCTTCAGAAGCCTTA
        129 AAAAATCTATTTATAGCCTCCCATTCTTTCAAAAGCCTTA

                  **       *     * *   *                           
       1257 TTACTCATTTTAAATGGTTTTCTCATCCAATAATTGATTTTAAGTTGAATTTTTT
          1 TTACTCGCTTTAAATAGTTTTATAATCTAATAATTGATTTTAAGTTGAATTTTTT

       1312 NNNNNNNNNN


Statistics
Matches: 449,  Mismatches: 103, Indels: 32
        0.77            0.18        0.05

Matches are distributed among these distances:
 169    7  0.02
 170   98  0.22
 171  304  0.68
 172   40  0.09

ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38


Consensus pattern (168 bp):   
TTACTCGCTTTAAATAGTTTTATAATCTAATAATTGATTTTAAGTTGAATTTTTTACATTTTTCA
TTAAAATAGACTATAATTGAATGTCTACCTGAGAAACGTGAAGAAAAAAGCATTCATTGGTAAAA
AAATCTATTTATAGCCTCCCATTCTTTCAAAAGCCTTA
Done.