Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402726.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5788.0, 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, 756

Length: 1260
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.36

Warning! 70 characters in sequence are not A, C, G, or T


Found at i:601 original size:170 final size:169

Alignment explanation


    Indices: 425--1126  Score: 559
    Period size: 169  Copynumber: 4.2  Consensus size: 169

        415 NNNNNNNNCT

                      *               *                *  *            * *   
        425 TTCAAAAGCCATATTACTCGCTTTAATTGGTTTTATAATCTCAGAATTGATTTTAAGTTGATTTG
          1 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATT-

                  *   * *                              ** *                  
        490 TTTTTATATTCTCTTAAAACAGACAATAATTGAATGTGTACCTTGATAAACATGAAGAAAAAAGC
         65 TTTTTACATTTTGTTAAAACAGACAATAATTGAATGTGTACCTCAAGAAACATGAAGAAAAAAGC

                 **********                   *     
        555 ATTCANNNNNNNNNNAAGTCCATTTATAGTCACCTATTCA
        130 ATTCATTGGCATGAAAAGTCCATTTATAGTCACCCATTCA

                    *                              *            **********   
        595 TTCAAAAGGCTTATTACTCGCTTTAAATGGTTTTATAATATCATAACTGATTNNNNNNNNNNTTT
          1 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATTT

                                               *                      *      
        660 TTTTACATTTTTAGTTAAAACAGACAATAATTGAAAGTGTACCTCAAGAAACATGAAGGAAAAAG
         66 TTTTACA-TTTT-GTTAAAACAGACAATAATTGAATGTGTACCTCAAGAAACATGAAGAAAAAAG

            *                                      * 
        725 TATTCATTGGCATGAAAAGTCCATTTATAGTCACCCATTTA
        129 CATTCATTGGCATGAAAAGTCCATTTATAGTCACCCATTCA

                    *              *                                         
        766 TTC-AAAGTCTTATTACTCGCTTCAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATTT
          1 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATTT

                           *  *                    *         ** *            
        830 TTTTACATTTTGTTATAATAGACAATAATTGAATGTGTATCTCAAGAAATGTAAAGAAAAAAGCA
         66 TTTTACATTTTGTTAAAACAGACAATAATTGAATGTGTACCTCAAGAAACATGAAGAAAAAAGCA

                      **********                    
        895 TTCATTGGCANNNNNNNNNNATTTATAGTCACCCATTTC-
        131 TTCATTGGCATGAAAAGTCCATTTATAGTCACCCA-TTCA

              *             *  *         *             *                     
        934 TTTAAAAGCCTTATTAATCACTTTAAATGATTTTATAATCTCAAAACTGATTTTAAGTTAAATTT
          1 TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATTT

              ** **    *      * *  *           **  *    *   * *  *       **  
        999 TTAAATTTTTTATTAAAATAAACTATAATTGAATGCCTATCTCAGGAAGCGTGTAG-AAAATCCA
         66 TTTTACATTTTGTTAAAACAGACAATAATTGAATGTGTACCTCAAGAAACATGAAGAAAAAAGCA

              *        *     *         *  *        *
       1063 TTGATTTGG-AAGAAAAATCCATTTATCGTAACCCATTCT
        131 TTCA-TTGGCATGAAAAGTCCATTTATAGTCACCCATTCA

                                      
       1102 TTCAAAA-CCTTATTACTCGCTTTAA
          1 TTCAAAAGCCTTATTACTCGCTTTAA

       1127 NNNNNNNNNN


Statistics
Matches: 416,  Mismatches: 110, Indels: 15
        0.77            0.20        0.03

Matches are distributed among these distances:
 167   19  0.05
 168  101  0.24
 169  113  0.27
 170  106  0.25
 171   77  0.19

ACGTcount: A:0.35, C:0.13, G:0.11, T:0.37


Consensus pattern (169 bp):   
TTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTAAATTT
TTTTACATTTTGTTAAAACAGACAATAATTGAATGTGTACCTCAAGAAACATGAAGAAAAAAGCA
TTCATTGGCATGAAAAGTCCATTTATAGTCACCCATTCA
Done.