Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402768.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5828.0, 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, 669

Length: 1116
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.38

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:371 original size:171 final size:171

Alignment explanation


    Indices: 11--1116  Score: 539
    Period size: 171  Copynumber: 6.5  Consensus size: 171

          1 ATTCATTAGC

                      *                      *   *  *   *    *         *     
         11 AAGAAAAGTCCATTTATAGTCACCCATTCCTTCGAAAGCCTTATCACTCACTTTAAATTATTTTA
          1 AAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATTGTTTTA

                         *   * *    *  *              *       * *         *  
         76 TAATCTCATAATTAATTCTGAGTTGAATTTTTTTACATTTTTTGTTAAAATAGACTATAATTTAA
         66 TAATCTCATAATTGATTTTAAGTTAAAGTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAA

             **  *   *        *  *   *           * ****
        141 TATCTAT-TTAGAGAAACGTGAAGAGAAA-CGCATTCGTNNNN
        131 TGCCTGTCTCA-AGAAACATGTAGAAAAAGC-CATTCATTGAA

            ******    **                            *              *         
        182 NNNNNNAGTCCCTTTATAGTCACCCATTCCTTCAAAAACCTTATTACTCGCTTTACATTGTTTTA
          1 AAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATTGTTTTA

                *                                     *                      
        247 TAATGTCATAATTGATTTTAAGTTAAAGTTTTTTACATTTTTGGTTAAAACAAACTATAATTGAA
         66 TAATCTCATAATTGATTTTAAGTTAAAGTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAA

                            **           **           
        312 TGCCTGTCTCAAGAAATGTGTAGAAAAAGGTATTCATTGAGA
        131 TGCCTGTCTCAAGAAACATGTAGAAAAAGCCATTCATTGA-A

                                    *   **       **                          
        354 AA-AAAAGTCAATTTATAGTCACCAATTATTTCAAAAGTCATATTACTCGCTTTAAATTGTTTTA
          1 AAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATTGTTTTA

                        **********  *  *       *              * *            
        418 TAATCTCATAATNNNNNNNNNNTTGAATTTTTTTATATTTTTAGTTAAAATAGACTATAATTGAA
         66 TAATCTCATAATTGATTTTAAGTTAAAGTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAA

              *                                      
        483 TGTCTGTCTCAAGAAACATGTAGAAAAAGCCATTCATTGAA
        131 TGCCTGTCTCAAGAAACATGTAGAAAAAGCCATTCATTGAA

                *     *                          **                   * *    
        524 AAGAGAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTCATATTACTCAG-TTTAAAATATTTT
          1 AAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAACCATATTACTC-GCTTTAAATTGTTTT

                    **********       *  *       *              *  *          
        588 ATAATCTCNNNNNNNNNNTTAAGTTGAATTTTTTTATATATTTT-GTTAAATCATACTATAATTG
         65 ATAATCTCATAATTGATTTTAAGTTAAAGTTTTTTACAT-TTTTAGTTAAAACAAACTATAATTG

                 *   *   * *    *   *           *         *
        652 AATG-TTGACCTCGATAAATGA-GAAGAAAAA-CACTTTCATTTG-C
        129 AATGCCTG-TCTCAAGAAA-CATGTAGAAAAAGC-CATTCA-TTGAA

                      *         *   *    *      ** *     *                   
        695 AAGAAAAGTCCATTTATAGTAACCAATTCTTTCAAATGCTATATTTCTCGCTTTAAATTGTTTTA
          1 AAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATTGTTTTA

                                     * *          *           **********     
        760 TAATCTCATAATTGATTTTAAGTTATATTTTTTTACATATTTAGTTAAAANNNNNNNNNNTTGAA
         66 TAATCTCATAATTGATTTTAAGTTAAAGTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAA

              *  **  **          *              *      *
        825 TGTCTACCTTGAGAAA-AGTGAAGAAAAA-CACATTTATTTG-C
        131 TGCCTGTCTCAAGAAACA-TGTAGAAAAAGC-CATTCA-TTGAA

                      *      *      *           **********   *        *      
        866 AAGAAAAGTCCATTTATTGTCACCTATTCCTTCAAANNNNNNNNNNCTCACTTTAAATAGTTTTA
          1 AAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATTGTTTTA

                    *           *   *                   *      * *         * 
        931 TAATCTCAAAATTGATTTTACGTTTAA-TTATTTTACATTTTTATTTAAAATAGACTATAATTAA
         66 TAATCTCATAATTGATTTTAAGTTAAAGTT-TTTTACATTTTTAGTTAAAACAAACTATAATTGA

               ** **   *       *    *      *    *     *
        995 ATGTTTACCTTGAA-AAACGTGTAAAAAAAGACATTAATTGAG
        130 ATGCCTGTC-TCAAGAAACATGTAGAAAAAGCCATTCATTGAA

                  *                * *           * **                        
       1037 AAGAAATGTCAATTTATAGTCACTCTTTCCTTCAAAAGCTTTATTACTCGCTTTAAATTGTTTTA
          1 AAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATTGTTTTA

                           
       1102 TAATCTCATAATTGA
         66 TAATCTCATAATTGA


Statistics
Matches: 712,  Mismatches: 203, Indels: 40
        0.75            0.21        0.04

Matches are distributed among these distances:
 169    1  0.00
 170   15  0.02
 171  682  0.96
 172   14  0.02

ACGTcount: A:0.34, C:0.13, G:0.10, T:0.38


Consensus pattern (171 bp):   
AAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAACCATATTACTCGCTTTAAATTGTTTTA
TAATCTCATAATTGATTTTAAGTTAAAGTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAA
TGCCTGTCTCAAGAAACATGTAGAAAAAGCCATTCATTGAA
Done.