Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402053.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5149.0, 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: 2300
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.31

Warning! 506 characters in sequence are not A, C, G, or T


Found at i:507 original size:15 final size:16

Alignment explanation


    Indices: 482--512  Score: 55
    Period size: 15  Copynumber: 2.0  Consensus size: 16

        472 AACATGAAGA

                            
        482 AAAAGCCTTTCATTGG
          1 AAAAGCCTTTCATTGG

                            
        498 AAAA-CCTTTCATTGG
          1 AAAAGCCTTTCATTGG

        513 CAAGTAAAGT


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  15   11  0.73
  16    4  0.27

ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32


Consensus pattern (16 bp):   
AAAAGCCTTTCATTGG

Found at i:2220 original size:171 final size:171

Alignment explanation


    Indices: 1966--2297  Score: 409
    Period size: 171  Copynumber: 1.9  Consensus size: 171

       1956 NNNNNNNNNN

                          *              *    *          *                *  
       1966 TAATTGATTTTAAGTTGAATTGTTTTACATTTTTGGTTAAAATAGGTTATAATTGAATGTCTGCC
          1 TAATTGATTTTAAGCTGAATTGTTTTACAATTTTAGTTAAAATAGATTATAATTGAATGTCTACC

                                           *          *                      
       2031 TCAAGAAACATCAAGAAAAAACCATTCATTGGCAAGAAAAATTCATTTATAGTAACCCATGCCGT
         66 TCAAGAAACATCAAGAAAAAACCATTCATTGACAAGAAAAATCCATTTATAGTAACCCATGCC-T

             *     *         *                        
       2096 TGAAAA-TATTATTACTTGCTCTAAATAGTTTGATAATGTCA
        130 TCAAAAGCATTATTACTCGCTCTAAATAGTTTGATAATGTCA

                                                                             
       2137 TAATTGATTTTAAGCTGAATTGTTTTACAATTTTAGTTAAAATAGATTATAATTCG-ATGTCTAC
          1 TAATTGATTTTAAGCTGAATTGTTTTACAATTTTAGTTAAAATAGATTATAATT-GAATGTCTAC

             * *      ** *        *  *            *   *   *        *  *      
       2201 TTTGAA-AAATGTGAAGAAAAAGCCTTTCATTGACAAGTAAAGTCCGTTTATAGTCACTCATGCC
         65 -CTCAAGAAACATCAAGAAAAAACCATTCATTGACAAGAAAAATCCATTTATAGTAACCCATGCC

                                  *          
       2265 TTCAAAAGCATTATTACTCGCTTTAAATAGTTT
        129 TTCAAAAGCATTATTACTCGCTCTAAATAGTTT

       2298 TAT


Statistics
Matches: 135,  Mismatches: 23, Indels: 6
        0.82            0.14        0.04

Matches are distributed among these distances:
 170    6  0.04
 171  125  0.93
 172    4  0.03

ACGTcount: A:0.36, C:0.13, G:0.14, T:0.38


Consensus pattern (171 bp):   
TAATTGATTTTAAGCTGAATTGTTTTACAATTTTAGTTAAAATAGATTATAATTGAATGTCTACC
TCAAGAAACATCAAGAAAAAACCATTCATTGACAAGAAAAATCCATTTATAGTAACCCATGCCTT
CAAAAGCATTATTACTCGCTCTAAATAGTTTGATAATGTCA
Done.