Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402991.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_658.0, 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: 17023
ACGTcount: A:0.18, C:0.06, G:0.07, T:0.18

Warning! 8772 characters in sequence are not A, C, G, or T


Found at i:6338 original size:171 final size:172

Alignment explanation


    Indices: 6018--6344  Score: 372
    Period size: 171  Copynumber: 1.9  Consensus size: 172

       6008 NNNNNNNNNN

                    *           *             **          *                  
       6018 TAATTGATTTTAAGTTGAATTTTTTTACATTTTTCGTTAAAACAGATTATAATTTGAATATCTAC
          1 TAATTGATATTAAGTTGAATATTTTTACATTTTTAATTAAAACAGAATATAATTTGAATATCTAC

                                   *   *                        *            
       6083 CTTGAGAAACATGAAGAAAAAAGTATTGAACTGTAAGAAAAGTCCATTTATAGTCTCCCATTCTT
         66 CTTGAGAAACATGAAGAAAAAAGCATTCAACTGTAAGAAAAGTCCATTTATAATCTCCCATTCTT

               **********                             
       6148 TCANNNNNNNNNNTACTCGCTTTAAACGATTTTATAATCTCA
        131 TCAAAAGTCTTATTACTCGCTTTAAACGATTTTATAATCTCA

                        *                                   *        * *     
       6190 TAATTGATATTATGTTGAATATTTTTACATTTTTAATTAAAACAGAATGTAA-TTGAGTGTCTAC
          1 TAATTGATATTAAGTTGAATATTTTTACATTTTTAATTAAAACAGAATATAATTTGAATATCTAC

                         *   **                   *                    *     
       6254 CTTGAGAAACATGGAG-GGAAAGACATTCAA-TGCTAATAAAAGTCCATTTATAATCTCTCATTC
         66 CTTGAGAAACATGAAGAAAAAAG-CATTCAACTG-TAAGAAAAGTCCATTTATAATCTCCCATTC

                                        
       6317 TTTCAAAAGTCTTATTACTCGCTTTAAA
        129 TTTCAAAAGTCTTATTACTCGCTTTAAA

       6345 TGGTTTTANN


Statistics
Matches: 126,  Mismatches: 27, Indels: 5
        0.80            0.17        0.03

Matches are distributed among these distances:
 170    6  0.05
 171   75  0.60
 172   45  0.36

ACGTcount: A:0.35, C:0.13, G:0.12, T:0.38


Consensus pattern (172 bp):   
TAATTGATATTAAGTTGAATATTTTTACATTTTTAATTAAAACAGAATATAATTTGAATATCTAC
CTTGAGAAACATGAAGAAAAAAGCATTCAACTGTAAGAAAAGTCCATTTATAATCTCCCATTCTT
TCAAAAGTCTTATTACTCGCTTTAAACGATTTTATAATCTCA

Found at i:11094 original size:172 final size:174

Alignment explanation


    Indices: 10782--11095  Score: 409
    Period size: 172  Copynumber: 1.8  Consensus size: 174

      10772 GTCTCCCATT

                            *                          * *    *  *    *      
      10782 CTTTCAAAAACCTTATTACTCACTTTAAATGATTTAATAATATCATAATTTATTTTAAGTTTAAC
          1 CTTTCAAAAACCTTATCACTCACTTTAAATGATTTAATAATATAAAAATTGATATTAACTTTAAC

             *                                      *   *     *              
      10847 TTTTTATAACATTTTTGATTAAAACAAATTACAATTGAATGCCTTCCTTGGGAAAAGTGAAGACA
         66 TCTTTATAACATTTTTGATTAAAACAAATTACAATTGAATACCTACCTTGAGAAAAGTGAAGACA

                                                        
      10912 AAAGCATTCATTAGCAGGAAAAGTCAATTTATAGTCTCGTGTTC
        131 AAAGCATTCATTAGCAGGAAAAGTCAATTTATAGTCTCGTGTTC

                     *                         *     *                       
      10956 CTTT-AAAAGCCTTATCACTCACTTTAAATGATTTCATAATCTAAAAATTGATATT-ACTTTGAA
          1 CTTTCAAAAACCTTATCACTCACTTTAAATGATTTAATAATATAAAAATTGATATTAACTTT-AA

                              *     ** *    *      *  *             *        
      11019 CTCTTTAT-ACATTTTTGGTTAAATTAGATTATAATTGAGTATCTACCTTGAGAAACGTGAAGAC
         65 CTCTTTATAACATTTTTGATTAAAACAAATTACAATTGAATACCTACCTTGAGAAAAGTGAAGAC

                         
      11083 AAAAGCATTCATT
        130 AAAAGCATTCATT

      11096 GGCAAGANNN


Statistics
Matches: 118,  Mismatches: 21, Indels: 4
        0.83            0.15        0.03

Matches are distributed among these distances:
 172   62  0.53
 173   52  0.44
 174    4  0.03

ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38


Consensus pattern (174 bp):   
CTTTCAAAAACCTTATCACTCACTTTAAATGATTTAATAATATAAAAATTGATATTAACTTTAAC
TCTTTATAACATTTTTGATTAAAACAAATTACAATTGAATACCTACCTTGAGAAAAGTGAAGACA
AAAGCATTCATTAGCAGGAAAAGTCAATTTATAGTCTCGTGTTC
Done.