Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398797.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2080.0, 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: 2057
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.32

Warning! 334 characters in sequence are not A, C, G, or T


Found at i:453 original size:171 final size:171

Alignment explanation


    Indices: 2--551  Score: 443
    Period size: 173  Copynumber: 3.2  Consensus size: 171

          1 C

                   * *                 *                    *         *      
          2 TAAAACAGATTATAATTGAATGTCTACATCTAGAAACATGAAGAAAAAGGCATTCATTCCAAAGA
          1 TAAAACAAACTATAATTGAATGTCTACCTCTAGAAACATGAAGAAAAAAGCATTCATTGC-AA-A

                 *             *        *     **            *     *          
         67 AAAATCCATTTATAGTCTCCTATTCCTTGAAAAGTGTTATTACTCACTTTAAATGGTTTTATTAT
         64 AAAATTCATTTATAGTCTCTTATTCCTTCAAAAGCCTTATTACTCACTGTAAATAGTTTTATTAT

                 **********  *      *      *           
        132 CTCAANNNNNNNNNNATGTTCAATTTTGTTTCACATTTTTAGT
        129 CTCAAAATTTATTTTATATTCAATGTTGTTTAACATTTTTAGT

               *                         *       **   *            *         
        175 TAAGACAAACTATAATTGAATGTCTA-CTTTGAGAAATGTGAGGAAAAAAGCATTTATTG-ATAA
          1 TAAAACAAACTATAATTGAATGTCTACCTCT-AGAAACATGAAGAAAAAAGCATTCATTGCA-AA

            *                     *              *        *               *  
        238 GAAATGTCTATTTATAGTCTCTCATTCCTTCAAAAGCTTTATTACTGACTGTAAATAGTTTTCTT
         64 AAAAT-TC-ATTTATAGTCTCTTATTCCTTCAAAAGCCTTATTACTCACTGTAAATAGTTTTATT

                                                          
        303 ATCTCAAAATTTATTTTATATTC-A-GTT-TTTAACATTTTT-GAT
        127 ATCTCAAAATTTATTTTATATTCAATGTTGTTTAACATTTTTAG-T

                                                                             
        345 TAAAACAAACTATAATTGAATGTCTACCTCTAGAAACATGAAGAAAAAAAGCATTCATTAGCAAA
          1 TAAAACAAACTATAATTGAATGTCTACCTCTAGAAACATGAAG-AAAAAAGCATTCATT-GCAAA

                               *                         **  *        *     *
        410 AAAAGTTCATTTATAGTCTTTTATTCCTTCAAAAGCCTTATTACTTGCTTTAAAT-GACTTTATA
         64 AAAA-TTCATTTATAGTCTCTTATTCCTTCAAAAGCCTTATTACTCACTGTAAATAG-TTTTATT

             *    *    *      **                   *  * *
        474 AACTCATAATTGATTTTAGGTTCAATGTT-TTT-ACATTATTGGC
        127 ATCTCAAAATTTATTTTATATTCAATGTTGTTTAACATTTTTAGT

                *  * *    *               *    
        517 TAAATCATATTATAGTTGAATGTCTACCTCAAGAA
          1 TAAAACAAACTATAATTGAATGTCTACCTCTAGAA

        552 NNNNNNNNNN


Statistics
Matches: 300,  Mismatches: 63, Indels: 29
        0.77            0.16        0.07

Matches are distributed among these distances:
 169    1  0.00
 170   47  0.16
 171   88  0.29
 172   51  0.17
 173  113  0.38

ACGTcount: A:0.36, C:0.13, G:0.11, T:0.38


Consensus pattern (171 bp):   
TAAAACAAACTATAATTGAATGTCTACCTCTAGAAACATGAAGAAAAAAGCATTCATTGCAAAAA
AATTCATTTATAGTCTCTTATTCCTTCAAAAGCCTTATTACTCACTGTAAATAGTTTTATTATCT
CAAAATTTATTTTATATTCAATGTTGTTTAACATTTTTAGT
Done.