Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400975.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4135.0, 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, 830

Length: 1384
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.30

Warning! 305 characters in sequence are not A, C, G, or T


Found at i:1101 original size:173 final size:171

Alignment explanation


    Indices: 603--1384  Score: 558
    Period size: 173  Copynumber: 4.5  Consensus size: 171

        593 NNNNNNNNNN

                 *  *         *            *                      *          
        603 TCATTAGCAAGAAAAGTCAATTTATAGTCTCTCATTCCTTTAAAAGCCTTATTAATCACTTTAAA
          1 TCATTGGCTAGAAAAGTCCATTTATAGTCTCCCATT-CTTT-AAAGCCTTATTACTCACTTTAAA

               *            *           *          *   *          *     **   
        668 TGGCTTTATAATCTCAAAATTGATTTT-CATTTGAA-TTATTTGTACATTTTTTGTTAAATTAGA
         64 TGGTTTTATAATCTCATAATTGATTTTAAATTT-AACTTTTTTTTACATTTTTTATTAAAACAGA

            *      **********             *          *  
        731 TTATAATNNNNNNNNNNCCTTGAGAAACATCAAGAAAAAAGTAT
        128 CTATAATTAAATGCCTACCTTGAGAAACATGAAGAAAAAAGCAT

                    *       *       **      *               *        *       
        775 TCATTGGCAAGAAAAGGCCATTTACGGTCTCCTATTCTTTCGAAAGCCATATTACTCGCTTTTAA
          1 TCATTGGCTAGAAAAGTCCATTTATAGTCTCCCATTCTTT--AAAGCCTTATTACTCAC-TTTAA

                           * *             *  *     *  *   *      **         
        840 ATGG-TTTAGTAATCCCGTAATTGATTTTAAGTTGAA--TATTGTTATATTTTTGGTTAAAACAG
         63 ATGGTTTTA-TAATCTCATAATTGATTTTAAATTTAACTTTTTTTTACATTTTTTATTAAAACAG

                     ***********         *               
        902 ACTATAATTNNNNNNNNNNNTTGAGAAACGTGAAGAAAAAAGCAT
        127 ACTATAATTAAATGCCTACCTTGAGAAACATGAAGAAAAAAGCAT

                                            *                               *
        947 TCATTGGCTAGAAAAAGTCCATTTATAGTCTCTCATTCCTTTAAACGCCTTATTACTCACTTTAC
          1 TCATTGGCTAG-AAAAGTCCATTTATAGTCTCCCATT-CTTTAAA-GCCTTATTACTCACTTTAA

             *               *     *          **********                  *  
       1012 ACGGTTTTATAATCTCAAAATTGGTTTT-AATTTNNNNNNNNNNTACA-TTTTTAGTTAAAATAG
         63 ATGGTTTTATAATCTCATAATTGATTTTAAATTTAACTTTTTTTTACATTTTTTA-TTAAAACAG

             *       *    *                 **  *         
       1075 ATTATAATTGAATGTCTACCTTGAGAAACATGGCG-GAAAAGACAT
        127 ACTATAATTAAATGCCTACCTTGAGAAACATGAAGAAAAAAG-CAT

               *                       *             *                *      
       1120 TCAATGG-TAGGAAAAGTCCATTTATATTCTCCCATTCTTGCAAATGCCTTATTACTCGCTTTAA
          1 TCATTGGCTA-GAAAAGTCCATTTATAGTCTCCCATTCTT-TAAA-GCCTTATTACTCACTTTAA

                   *                                                        *
       1184 ATGGTTTAATAATCTCATAATTGATTTTAAATTTAACTTTTTTTTACATTTTTTATTAAAACAGG
         63 ATGGTTTTATAATCTCATAATTGATTTTAAATTTAACTTTTTTTTACATTTTTTATTAAAACAGA

                                         *              
       1249 CTATAATTAAATGCCTACCTTGAGAAACACGAAGAAAAAAGCAT
        128 CTATAATTAAATGCCTACCTTGAGAAACATGAAGAAAAAAGCAT

                    *                    *                            *      
       1293 TCATTGGCAAGAAAA-TACCATTTATAGTTTCCCATTCTTTCAATAGCCTTATTACTCTCTTTAA
          1 TCATTGGCTAGAAAAGT-CCATTTATAGTCTCCCATTCTTT-AA-AGCCTTATTACTCACTTTAA

                                        
       1357 ATGGTTTTATAATCTCATAATTGATTTT
         63 ATGGTTTTATAATCTCATAATTGATTTT


Statistics
Matches: 478,  Mismatches: 111, Indels: 41
        0.76            0.18        0.07

Matches are distributed among these distances:
 171   10  0.02
 172  219  0.46
 173  230  0.48
 174   19  0.04

ACGTcount: A:0.33, C:0.14, G:0.12, T:0.37


Consensus pattern (171 bp):   
TCATTGGCTAGAAAAGTCCATTTATAGTCTCCCATTCTTTAAAGCCTTATTACTCACTTTAAATG
GTTTTATAATCTCATAATTGATTTTAAATTTAACTTTTTTTTACATTTTTTATTAAAACAGACTA
TAATTAAATGCCTACCTTGAGAAACATGAAGAAAAAAGCAT

Done.