Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398607.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1897.0, 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, 815

Length: 1359
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.25

Warning! 448 characters in sequence are not A, C, G, or T


Found at i:395 original size:170 final size:169

Alignment explanation


    Indices: 8--798  Score: 506
    Period size: 171  Copynumber: 4.6  Consensus size: 169

          1 TAAAACC

                                                                  *     *    
          8 ATTTAAA-ATGAGTAATAAGGCTTTTGAAGGAATAGGAAACTATAAATGGACTTCTCTTGGCAAT
          1 ATTTAAAGA-GAGTAATAAGGCTTTTGAAGGAATAGGAAACTATAAATGGACTTTTCTTGCCAAT

                *          *  *                         *                    
         72 GAATACTTTTTTCTTGACATTTCTCAAGGTAAACATTCAATTATTGTCTATTTTAATGAAAAATC
         65 GAATGC-TTTTTCTTCACGTTTCTCAAGGTAAACATTCAATTATAGTCTATTTTAAT-AAAAATC

                  * *     *             * *           
        137 TAAAAAAACTCAACGTAAAATCAATTATGATATTATAAAATT
        128 TAAAAACATTCAACTTAAAATCAATTATAAAATTATAAAATT

                                          **********                         
        179 ATTTAAAGAGAGTAATAAGGCTTTTGAAGGNNNNNNNNNNTATAAATGGACTTTTCTTGCCAATG
          1 ATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGAAACTATAAATGGACTTTTCTTGCCAATG

                                  **  *                           *          
        244 AATGCTTTTTCTTCACGTTTCTTGAGATAAACATTCAATTATAGTCTATTTTGACTAAAAATCTA
         66 AATGCTTTTTCTTCACGTTTCTCAAGGTAAACATTCAATTATAGTCTATTTT-AATAAAAATCTA

                    *                           ****
        309 AAAACATTTAACTTAAAATCAATTATAAAATTATAANNNN
        130 AAAACATTCAACTTAAAATCAATTATAAAATTATAAAATT

            ******  *        *       *           *           *     *   *     
        349 NNNNNNAGCGAGTAATATGGCTTTTAAAGGAATAGGAGACTATAAATGGCCTTTTTTTGTCAATG
          1 ATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGAAACTATAAATGGACTTTTCTTGCCAATG

                                           *                 *              *
        414 AATGCTTGTTTCTTCA-GTTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAAGTAAAAATG
         66 AATGCTT-TTTCTTCACG-TTTCTCAAGGTAAACATTCAATTATAGTCTATTTTAA-TAAAAATC

              *                        **********    **
        478 T-GAAACAATTCAACTTAAAATCAATTNNNNNNNNNNAAAACA
        128 TAAAAAC-ATTCAACTTAAAATCAATTATAAAATTATAAAATT

                    *         *          *       *                     *     
        520 ATTTAAAGTGAGTAATAACGCTTTTGAAGAAATTA-GTAACTATAAATGGACTTTT-TTTCTCAA
          1 ATTTAAAGAGAGTAATAAGGCTTTTGAAGGAA-TAGGAAACTATAAATGGACTTTTCTTGC-CAA

                           *  *        *      *   *             **********   
        583 TGAATGACTTTTTCTGCATGTTTC-CTGAGGTAAGCATCCAATTATAGTCTGNNNNNNNNNNAAA
         64 TGAATG-CTTTTTCTTCACGTTTCTC-AAGGTAAACATTCAATTATAGTCT-ATTTTAATAAAAA

             *             *                * *         * 
        647 TGTAAAAGA-ATTCAGCTTAAAAAT-AATTATGAGATTATAAAACT
        126 TCTAAAA-ACATTCAACTT-AAAATCAATTATAAAATTATAAAATT

                       *      *      *        *  **         *              * 
        691 ATTTAAA-ACGTGTAATATGGCTTTCGAAGGAATGGGTCACTATAAATAGAC-TTT-TTGCCAGT
          1 ATTTAAAGA-GAGTAATAAGGCTTTTGAAGGAATAGGAAACTATAAATGGACTTTTCTTGCCAAT

                             *                      *     
        753 GAATGCTTTTTTCTTCATGTTTCTCAAGGTAAACATTCAACTATAG
         65 GAATGC-TTTTTCTTCACGTTTCTCAAGGTAAACATTCAATTATAG

        799 CTTGTTTTAA


Statistics
Matches: 466,  Mismatches: 135, Indels: 40
        0.73            0.21        0.06

Matches are distributed among these distances:
 168    1  0.00
 169   40  0.09
 170  147  0.32
 171  263  0.56
 172   14  0.03
 173    1  0.00

ACGTcount: A:0.36, C:0.11, G:0.14, T:0.35


Consensus pattern (169 bp):   
ATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGAAACTATAAATGGACTTTTCTTGCCAATG
AATGCTTTTTCTTCACGTTTCTCAAGGTAAACATTCAATTATAGTCTATTTTAATAAAAATCTAA
AAACATTCAACTTAAAATCAATTATAAAATTATAAAATT
Done.