Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402132.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5224.0, 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: 4310
ACGTcount: A:0.26, C:0.09, G:0.08, T:0.27

Warning! 1290 characters in sequence are not A, C, G, or T


Found at i:2418 original size:171 final size:171

Alignment explanation


    Indices: 1987--2651  Score: 441
    Period size: 171  Copynumber: 3.9  Consensus size: 171

       1977 NNNNNNNNNN

                            *     *                  *      *                
       1987 ATCTCATAATTGATTTCAAGTTGAA-TTGTTTTACATTTTTTGTTAAAGCAGACTATAATTGAAT
          1 ATCTCATAATTGATTTTAAGTTCAATTTGTTTTACATTTTTAGTTAAAACAGACTATAATTGAAT

                    *       *     *                                          
       2051 GTTTACATCGAGAAATATGAAAAAAAAAGCATTCATTGACAAGAAAAGTACATTTACAGTCTCCT
         66 GTTTACATTGAGAAATGTG-AAGAAAAAGCATTCATTGACAAGAAAAGTACATTTACAGTCTCCT

                                                      
       2116 ATTCCTTCACAAGCCTTATTACTCACTTTAAATGGTTTGATA
        130 ATTCCTTCACAAGCCTTATTACTCACTTTAAATGGTTTGATA

                  *    *       *  *     *            *         * *        *  
       2158 ATCTCAAAATTTATTTTAAATTTAATTTTTTTTACATTTTTGGTTAAAACATATTATAATTGGAT
          1 ATCTCATAATTGATTTTAAGTTCAATTTGTTTTACATTTTTAGTTAAAACAGACTATAATTGAAT

              **  *   **     *        *          **      *  *      *         
       2223 GTCAACTTTGTTAAATGGGAAGAAAAGGCATTCATTGGTAAGAAATGTCCATTTATAGTCATCC-
         66 GTTTACATTGAGAAATGTGAAGAAAAAGCATTCATTGACAAGAAAAGTACATTTACAGTC-TCCT

                **********                   *    *  *
       2287 ATTCNNNNNNNNNNCTTATTACTCACTTTAAATTGTTTTATT
        130 ATTCCTTCACAAGCCTTATTACTCACTTTAAATGGTTTGATA

                              *                                  *       *   
       2329 ATCTCATAATTGATTTTATGTTCAATTTGTTTTACATTTTTAGTTAAAACAGAGTATAATTAAAT
          1 ATCTCATAATTGATTTTAAGTTCAATTTGTTTTACATTTTTAGTTAAAACAGACTATAATTGAAT

                  *        *            **        *     *             *     *
       2394 GTTTACCTTGAGAAACGTGAAGAAAAAAATATTCATTGGCAAGAGAAGT-CTATTTA-TGTC-CT
         66 GTTTACATTGAGAAATGTGAAG-AAAAAGCATTCATTGACAAGAAAAGTAC-ATTTACAGTCTCC

                 *     *    * *   **********        *   
       2456 TCATTACTTCAAAAGCATCATTNNNNNNNNNNAATGGTTTTATA
        129 T-ATTCCTTCACAAGCCTTATTACTCACTTTAAATGGTTTGATA

                                                    *  *       *   *         
       2500 ATCTCATAATTGATTTTAAGTTCAATTT-TTAGTT-CATTGTTGGTTAAAATAGATTATAATTGA
          1 ATCTCATAATTGATTTTAAGTTCAATTTGTT--TTACATTTTTAGTTAAAACAGACTATAATTGA

                     * *       *          *          *                * *    
       2563 ATGTCTT-CCTCGAGAAATATGAAGAAAACGGCATTCATTGGCAAGAAAAGT-CTATTGATAGTC
         64 ATGT-TTACATTGAGAAATGTGAAGAAAA-AGCATTCATTGACAAGAAAAGTAC-ATTTACAGTC

               *          *            
       2626 AT-TTATTCCTTCAAAAGCCTTATTAC
        126 -TCCTATTCCTTCACAAGCCTTATTAC

       2652 NNNNNNNNNN


Statistics
Matches: 371,  Mismatches: 110, Indels: 25
        0.73            0.22        0.05

Matches are distributed among these distances:
 169    1  0.00
 170    6  0.02
 171  266  0.72
 172   96  0.26
 173    2  0.01

ACGTcount: A:0.34, C:0.12, G:0.12, T:0.39


Consensus pattern (171 bp):   
ATCTCATAATTGATTTTAAGTTCAATTTGTTTTACATTTTTAGTTAAAACAGACTATAATTGAAT
GTTTACATTGAGAAATGTGAAGAAAAAGCATTCATTGACAAGAAAAGTACATTTACAGTCTCCTA
TTCCTTCACAAGCCTTATTACTCACTTTAAATGGTTTGATA
Done.