Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399962.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_319.0, 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: 3346
ACGTcount: A:0.24, C:0.09, G:0.08, T:0.25

Warning! 1142 characters in sequence are not A, C, G, or T


Found at i:2112 original size:171 final size:171

Alignment explanation


    Indices: 1822--2134  Score: 382
    Period size: 171  Copynumber: 1.8  Consensus size: 171

       1812 NNNNNNNNNN

                       *   *          *                 *                *   
       1822 TTTTATAATCTTATAGTTGATTTTAAGTTAAATTTTTTTACATTTTTTGTTAAAACAGATTGTAA
          1 TTTTATAATCTCATAATTGATTTTAAATTAAATTTTTTTACATTATTTGTTAAAACAGATTATAA

              * *         **     *           *           *          *        
       1887 TTGATTGTCTACCTTGAGAAATGTGCAAATAAAGCCATTCATTGAGAAGAAAAGTCTATTTAAAG
         66 TTAAATGTCTACCTCAAGAAACGTGCAAATAAAACCATTCATTGACAAGAAAAGTCCATTTAAAG

                *                                    
       1952 TCACTCATTCCTTCAAAATGCTTATTACCCACTATTAATGG
        131 TCACCCATTCCTTCAAAATGCTTATTACCCACTATTAATGG

                                         *                             *     
       1993 TTTTATAATCTCATAATTGATTTTAAATTGAATTTTTTTACA-TATTTGATTAAAACAGGTTATA
          1 TTTTATAATCTCATAATTGATTTTAAATTAAATTTTTTTACATTATTTG-TTAAAACAGATTATA

                        *                                      *             
       2057 ATTAAATG-CTTGCCTCAAGAAACGTG-AAGA-AACAACCATTCATTGACAGGAAAAGTCCATTT
         65 ATTAAATGTC-TACCTCAAGAAACGTGCAA-ATAA-AACCATTCATTGACAAGAAAAGTCCATTT

             *    *         
       2119 AGAGTCTCCCATTCCT
        127 AAAGTCACCCATTCCT

       2135 NNNNNNNNNN


Statistics
Matches: 118,  Mismatches: 20, Indels: 8
        0.81            0.14        0.05

Matches are distributed among these distances:
 170   10  0.08
 171  108  0.92

ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39


Consensus pattern (171 bp):   
TTTTATAATCTCATAATTGATTTTAAATTAAATTTTTTTACATTATTTGTTAAAACAGATTATAA
TTAAATGTCTACCTCAAGAAACGTGCAAATAAAACCATTCATTGACAAGAAAAGTCCATTTAAAG
TCACCCATTCCTTCAAAATGCTTATTACCCACTATTAATGG

Found at i:2722 original size:171 final size:171

Alignment explanation


    Indices: 2350--2778  Score: 423
    Period size: 171  Copynumber: 2.5  Consensus size: 171

       2340 NNNNNNNNTA

                                                                             
       2350 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-TTGAAAACAAACTATA
          1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTATT-AAAACAAACTATA

                   *          *                  **   *                      
       2414 ATTAAATACCTACCTCAAGAAACATGCAAAAAAAACTTGTTCGTTGAGAAGAAAAGTCCATTTAT
         65 ATTAAATGCCTACCTCAACAAACATGCAAAAAAAACTCATTCATTGAGAAGAAAAGTCCATTTAT

              *         *                             
       2479 AGTCACCCATTCTTTCAAAAGTGTTATTACTCGATTTAAATG
        130 AGGCACCCATTCCTTCAAAAGTGTTATTACTCGATTTAAATG

                          **********                                 **      
       2521 GTTTTATAATCTCANNNNNNNNNNTAAGTTGAATTTTTTTACATTTTTAGTTAAAACGGACTATA
          1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTA-TTAAAACAAACTATA

                     * *    *      *          *                              
       2586 ATTAAATGCTTGCCTCGACAAACTTGCAAAAAAAGC-CATTCATTGAGAAGAAAAGTCCATTTAT
         65 ATTAAATGCCTACCTCAACAAACATGCAAAAAAAACTCATTCATTGAGAAGAAAAGTCCATTTAT

                                              *   *****
       2650 AGGCACCCATTCCTTCAAAAG-GCTTATTACTCGCTTTNNNNN
        130 AGGCACCCATTCCTTCAAAAGTG-TTATTACTCGATTTAAATG

            *****                               *     *         *   **       
       2692 NNNNNATAATCTCATAATTGATTTTAAGTTGAATTTGTTTACGTTTTTATTAGAACCTACTATAA
          1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTATTAAAACAAACTATAA

              *    *         *    
       2757 TTGAATGTCTACCTCAAGAAAC
         66 TTAAATGCCTACCTCAACAAAC

       2779 GTGAAGAAAC


Statistics
Matches: 199,  Mismatches: 56, Indels: 7
        0.76            0.21        0.03

Matches are distributed among these distances:
 170   30  0.15
 171  127  0.64
 172   40  0.20
 173    2  0.01

ACGTcount: A:0.34, C:0.15, G:0.11, T:0.36


Consensus pattern (171 bp):   
GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTATTAAAACAAACTATAA
TTAAATGCCTACCTCAACAAACATGCAAAAAAAACTCATTCATTGAGAAGAAAAGTCCATTTATA
GGCACCCATTCCTTCAAAAGTGTTATTACTCGATTTAAATG
Done.