Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402397.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5476.0, 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: 1773
ACGTcount: A:0.21, C:0.08, G:0.07, T:0.22

Warning! 761 characters in sequence are not A, C, G, or T


Found at i:1101 original size:170 final size:168

Alignment explanation


    Indices: 555--1101  Score: 470
    Period size: 170  Copynumber: 3.2  Consensus size: 168

        545 NNNNNNNNNN

                                    *                     *     *            
        555 TTTATAATCTCATAATTGATTTTATGTTGAATTTTTTTATATTTTTGGTTAAGATAGACTATAAT
          1 TTTATAATCTCATAATTGATTTTAAGTTG-ATTTTTTTATA-TTTTAGTTAAAATAGACTATAAT

             *   * *                                                     **  
        620 TAAATATATACCTCAA-AAAAATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTACGGT
         64 TGAATGTCTACCTCAAGAAAAATGAAGAAAAA-GCATTCATTGGCAAGAAAAGTCCATTTATAGT

             * **                                    
        684 CTCGTATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGT
        128 CACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGT

                             ***************              *                  
        725 TTTATAATCTCATAANNNNNNNNNNNNNNNNNTTTTTTTATATTTTTGATTAAAATAGACTATAA
          1 TTTATAATCTCATAA--TTGATTTTAAGTTGATTTTTTTATATTTTAG-TTAAAATAGACTATAA

                           *     **                         *       *        
        790 TTGAATGTCTACCTCGAGAAATGTGAAGGAAAAAGCATTCATTGGCAAAAAAAGTCTATTTATAG
         63 TTGAATGTCTACCTCAAGAAAAATGAA-GAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAG

                     *         *          *    *******
        855 TCACCCATTTCTTCAAAAGGCTTATTACTCGCTTTNNNNNNN
        127 TCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGT

            ***         *               *                             *    * 
        897 NNNATAATCTCAAAATTGATTTTAAG-TAATTTTTTTAATATTATTAGTTAAAATAGATTATAGT
          1 TTTATAATCTCATAATTGATTTTAAGTTGATTTTTTT-ATATT-TTAGTTAAAATAGACTATAAT

                         *      *                      *  *                  
        961 TGAATGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGACATGAAAAGTCCATTTATAGT
         64 TGAATGTCTACCTCAAGAAAAATGAAGAAAAAG-CATTCATTGGCAAGAAAAGTCCATTTATAGT

                         *              *         *  
       1026 CACCCATTCCTTCTAAAGCCTTATTACTTACTTTAAATTGT
        128 CACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGT

                              *                 
       1067 TTTAT-ATCTCATAATTGCTTTTAAGTTGATTTTTT
          1 TTTATAATCTCATAATTGATTTTAAGTTGATTTTTT

       1102 NNNNNNNNNN


Statistics
Matches: 281,  Mismatches: 87, Indels: 18
        0.73            0.23        0.05

Matches are distributed among these distances:
 169   32  0.11
 170  128  0.46
 171   41  0.15
 172   74  0.26
 173    6  0.02

ACGTcount: A:0.34, C:0.12, G:0.11, T:0.38


Consensus pattern (168 bp):   
TTTATAATCTCATAATTGATTTTAAGTTGATTTTTTTATATTTTAGTTAAAATAGACTATAATTG
AATGTCTACCTCAAGAAAAATGAAGAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCAC
CCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGT
Done.