Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401122.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4279.0, 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: 2053
ACGTcount: A:0.21, C:0.08, G:0.07, T:0.23

Warning! 862 characters in sequence are not A, C, G, or T


Found at i:47 original size:16 final size:16

Alignment explanation


    Indices: 28--75  Score: 87
    Period size: 16  Copynumber: 2.9  Consensus size: 16

         18 ATAAGCTCAT

                            
         28 AATTTATTTTAATTTG
          1 AATTTATTTTAATTTG

                            
         44 AATTTATTTTAATTTG
          1 AATTTATTTTAATTTG

                            
         60 AATTTATTTTATATTT
          1 AATTTATTTTA-ATTT

         76 TTTTTAAAAT


Statistics
Matches: 31,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  16   27  0.87
  17    4  0.13

ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65


Consensus pattern (16 bp):   
AATTTATTTTAATTTG

Found at i:2026 original size:171 final size:170

Alignment explanation


    Indices: 1733--2053  Score: 414
    Period size: 171  Copynumber: 1.9  Consensus size: 170

       1723 NNNNNNNNNN

                                                                          *  
       1733 TTTTATATTTTTTATTAAAACAGAGTATAATTGAATGTCTACCTTGAGAAACATAAAGAAAATGA
          1 TTTTATATTTTTTATTAAAACAGAGTATAATTGAATGTCTACCTTGAGAAACATAAAGAAAAAGA

                      *         *         *    **    *                       
       1798 TATCCATTGGTCAGAAAAGTTCATTCATAGTCACCCTTGCCTTCAAAAGCCTTATTACTCGCTTT
         66 TATCCATTGGCCAGAAAAGTCCATTCATAGCCACCAATGCCCTCAAAAGCCTTATTACTCGCTTT

                      *                             
       1863 AAATGATTTTGTAACCTCATATTTGATTTTAATTTAATAT
        131 AAATGATTTTATAACCTCATATTTGATTTTAATTTAATAT

                             *       *    *                        * *       
       1903 TTTTAATATTTTTTATTTAAACAGATTATAGTTGAATGT-TCACCTCT-AGAAACGTGAAGAAAA
          1 TTTT-ATATTTTTTATTAAAACAGAGTATAATTGAATGTCT-ACCT-TGAGAAACATAAAGAAAA

                *                *       *                        *        * 
       1966 AGATGTCCATT-GCCAAGAAATGTCCATTTATAGCCACCAATGCCCTCAAAAGCTTTATTACTTG
         63 AGATATCCATTGGCC-AGAAAAGTCCATTCATAGCCACCAATGCCCTCAAAAGCCTTATTACTCG

                              *     
       2030 CTTTAAATGATTTTATAAGCTCAT
        127 CTTTAAATGATTTTATAACCTCAT


Statistics
Matches: 128,  Mismatches: 19, Indels: 7
        0.83            0.12        0.05

Matches are distributed among these distances:
 170    7  0.05
 171  120  0.94
 172    1  0.01

ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38


Consensus pattern (170 bp):   
TTTTATATTTTTTATTAAAACAGAGTATAATTGAATGTCTACCTTGAGAAACATAAAGAAAAAGA
TATCCATTGGCCAGAAAAGTCCATTCATAGCCACCAATGCCCTCAAAAGCCTTATTACTCGCTTT
AAATGATTTTATAACCTCATATTTGATTTTAATTTAATAT
Done.