Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401413.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4540.0, 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: 2192
ACGTcount: A:0.24, C:0.08, G:0.09, T:0.22

Warning! 815 characters in sequence are not A, C, G, or T


Found at i:510 original size:170 final size:171

Alignment explanation


    Indices: 1--654  Score: 441
    Period size: 172  Copynumber: 3.8  Consensus size: 171

                     *         *                                        ***  
          1 TTAAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGTC-TTTTTCATT-ATGGTT
          1 TTAAAGGAAAGGGTGACTAGAAATGAACTTTTCTTGCCAATGAATG-CATTTTTC-TTCACATTT

                      *             *   *         **                       * 
         64 CTCAAGGTG-GACATTCAATTATAGTCTATTTTAACC-TGAA-ATGTAAAAAAAATAT-AATCTT
         64 CTCAAGG-GAAACATTCAATTATAATCTGTTTTAACCAAAAACATGT---AAAAAT-TCAA-CGT

                               *    **  * *        *         
        125 AAAATCAATTATGGCATTACAAAACCATATAAAGCAAGTGATAAGGCTT
        123 AAAATCAATTATGGCATTAAAAAAATATTTTAAGCAAGTAATAAGGCTT

              *    * *         *         *                * *          ** *  
        174 TTGAAGGTATGGGTGACTATAAATTG-ACGTTTCTTGCCAATGAATTCTTTTTTCTTCATGTCTC
          1 TTAAAGGAAAGGGTGACTAGAAA-TGAACTTTTCTTGCCAATGAATGCATTTTTCTTCACATTTC

                  * *                 *      *                        ** *   
        238 TCAAGGTAGACATTCAATTATAATCTATTTTAATC-AAAA-ATGTACAAGGAATTCAAATTTAAA
         65 TCAAGGGAAACATTCAATTATAATCTGTTTTAACCAAAAACATGTA-AA--AATTCAACGTAAAA

                ********** *    **    *   ***            
        301 TCAANNNNNNNNNNATAAAACCATTTAAAGTTTGTAATAAGGCTT
        127 TCAATTATGGCATTAAAAAAATATTTTAAGCAAGTAATAAGGCTT

                          *            *    *                         **     
        346 TTAAAGGAAAGGGTTACTAGAAATGAATTTTTTTTGCCAATGAATGCATTTTT-TT-ATGTTTCT
          1 TTAAAGGAAAGGGTGACTAGAAATGAACTTTTCTTGCCAATGAATGCATTTTTCTTCACATTTCT

            *            *                   *      *                        
        409 TAAGGGAAACATTGAATTATAATCTGTTTTAACTAAAAACGTG-AAAATATTCAATCGTAAAATC
         66 CAAGGGAAACATTCAATTATAATCTGTTTTAACCAAAAACATGTAAAA-ATTCAA-CGTAAAATC

                                                       
        473 AATTATGGCATTAAAAAAATATTTTAAGCAAGTAATAAGGCTT
        129 AATTATGGCATTAAAAAAATATTTTAAGCAAGTAATAAGGCTT

              *    * *         *     *          *        * *                 
        516 TTTAAGGTACGGGTGACTATAAATGGACTTTTCTTGTCAATGAATTCTTTTTTCTTCACATTTCT
          1 TTAAAGGAAAGGGTGACTAGAAATGAACTTTTCTTGCCAATGAATGCATTTTTCTTCACATTTCT

                   *             *                 *           *   *         
        581 CAAGGGAGACATTCAATTATAGTCTGTTTTAACCAAAAATATGTAAAAATTTAACTTAAAATCAA
         66 CAAGGGAAACATTCAATTATAATCTGTTTTAACCAAAAACATGTAAAAATTCAACGTAAAATCAA

                     
        646 TTATGGCAT
        131 TTATGGCAT

        655 CATAANNNNN


Statistics
Matches: 375,  Mismatches: 90, Indels: 34
        0.75            0.18        0.07

Matches are distributed among these distances:
 168    1  0.00
 169    6  0.02
 170  111  0.30
 171   32  0.09
 172  127  0.34
 173   96  0.26
 174    2  0.01

ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36


Consensus pattern (171 bp):   
TTAAAGGAAAGGGTGACTAGAAATGAACTTTTCTTGCCAATGAATGCATTTTTCTTCACATTTCT
CAAGGGAAACATTCAATTATAATCTGTTTTAACCAAAAACATGTAAAAATTCAACGTAAAATCAA
TTATGGCATTAAAAAAATATTTTAAGCAAGTAATAAGGCTT
Done.