Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401656.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4773.0, 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: 3657
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.21

Warning! 1664 characters in sequence are not A, C, G, or T


Found at i:1481 original size:171 final size:159

Alignment explanation


    Indices: 1304--1611  Score: 305
    Period size: 171  Copynumber: 1.9  Consensus size: 159

       1294 GTCTTGTAAT

                                              *      *           *           
       1304 TGATTTTAAGTTAAATATTTTTACATTTTTGG-TTAAACAATATTAAAATTGATTGTTTGCCTTG
          1 TGATTTTAAGTTAAATATTTTTACATTTTTGGCTAAAAC-AGATTAAAATTGAATGTTTG-CTTG

             **  *                  *   *                    *               
       1368 GGCAACAA-GAAGAAAAACCCATTGATTGGCAAGAAAAGTCTATTTATAGTCACAAATTCCTTCA
         64 GAAAAAAATGAAGAAAAACCCATTCA-TAG-AAGAAAAGTCTATTTATACTCACAAATTCCTTCA

                                                       
       1432 AAAGCCTTATTACTNNNNNNNNNNGGTTTTGTAATCTCATATA
        127 AAAGCCTTATTACT----------GGTTTTGTAATCTCATATA

                            *                        *   *                *  
       1475 TGATTTTAAGTTAAATTTTTTTACATTTTTGGCTAAAACAGGTTATAATTGAATGTTTGCTTTGA
          1 TGATTTTAAGTTAAATATTTTTACATTTTTGGCTAAAACAGATTAAAATTGAATGTTTGCTTGGA

                          * **                             *  **             
       1540 AAAAAATGAAGAAAGAGTCATTCATAGAAGAAAAGTCTATTTATACTTACCCATTCCTTCAAAAG
         66 AAAAAATGAAGAAAAACCCATTCATAGAAGAAAAGTCTATTTATACTCACAAATTCCTTCAAAAG

                   
       1605 CCTTATT
        131 CCTTATT

       1612 NNNNNNNNNN


Statistics
Matches: 116,  Mismatches: 19, Indels: 6
        0.82            0.13        0.04

Matches are distributed among these distances:
 169   41  0.35
 170   10  0.09
 171   60  0.52
 172    5  0.04

ACGTcount: A:0.35, C:0.12, G:0.13, T:0.37


Consensus pattern (159 bp):   
TGATTTTAAGTTAAATATTTTTACATTTTTGGCTAAAACAGATTAAAATTGAATGTTTGCTTGGA
AAAAAATGAAGAAAAACCCATTCATAGAAGAAAAGTCTATTTATACTCACAAATTCCTTCAAAAG
CCTTATTACTGGTTTTGTAATCTCATATA

Found at i:2727 original size:19 final size:19

Alignment explanation


    Indices: 2700--2738  Score: 53
    Period size: 19  Copynumber: 2.1  Consensus size: 19

       2690 GAATGGGTGA

                                
       2700 CTATAAATGGACT-TTTCTT
          1 CTATAAAT-GACTCTTTCTT

                *              
       2719 CTATGAATGACTCTTTCTT
          1 CTATAAATGACTCTTTCTT

             
       2738 C
          1 C

       2739 ATTTTTTTTC


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  18    4  0.22
  19   14  0.78

ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46


Consensus pattern (19 bp):   
CTATAAATGACTCTTTCTT
Done.