Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397567.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1953.0, 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: 6916
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.31

Warning! 264 characters in sequence are not A, C, G, or T


Found at i:4404 original size:29 final size:28

Alignment explanation


    Indices: 4366--4453  Score: 115
    Period size: 29  Copynumber: 3.1  Consensus size: 28

       4356 TATGTTACAA

                             *           
       4366 GTTATATTGAAAAAAAAATATTATTATCT
          1 GTTATATTGAAAAAAAATTATTATTA-CT

                 *         *            *
       4395 GTTATTTTGAAAAAATATTATTATTACAC
          1 GTTATATTGAAAAAAAATTATTATTAC-T

                                        
       4424 GTTATATT-AAAAAAAATTATTATTACT
          1 GTTATATTGAAAAAAAATTATTATTACT

               
       4451 GTT
          1 GTT

       4454 TAAAAAACTT


Statistics
Matches: 51,  Mismatches: 7, Indels: 4
        0.82            0.11        0.06

Matches are distributed among these distances:
  27    3  0.06
  28   18  0.35
  29   30  0.59

ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44


Consensus pattern (28 bp):   
GTTATATTGAAAAAAAATTATTATTACT

Found at i:4667 original size:8 final size:7

Alignment explanation


    Indices: 4641--4683  Score: 59
    Period size: 7  Copynumber: 5.9  Consensus size: 7

       4631 ATTAAAAAAA

                   
       4641 AAATTTT
          1 AAATTTT

                *  
       4648 AAATCTT
          1 AAATTTT

                    
       4655 AAATTTAT
          1 AAATTT-T

                   
       4663 AAATTTT
          1 AAATTTT

                    
       4670 AAATATTT
          1 AAAT-TTT

                  
       4678 AAATTT
          1 AAATTT

       4684 ATTAGTGTCT


Statistics
Matches: 32,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
   7   18  0.56
   8   14  0.44

ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51


Consensus pattern (7 bp):   
AAATTTT

Found at i:4671 original size:15 final size:14

Alignment explanation


    Indices: 4641--4683  Score: 59
    Period size: 15  Copynumber: 2.9  Consensus size: 14

       4631 ATTAAAAAAA

                       *  
       4641 AAATTTTAAATCTT
          1 AAATTTTAAATTTT

                           
       4655 AAATTTATAAATTTT
          1 AAATTT-TAAATTTT

                          
       4670 AAATATTTAAATTT
          1 AAAT-TTTAAATTT

       4684 ATTAGTGTCT


Statistics
Matches: 26,  Mismatches: 1, Indels: 3
        0.87            0.03        0.10

Matches are distributed among these distances:
  14    6  0.23
  15   18  0.69
  16    2  0.08

ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51


Consensus pattern (14 bp):   
AAATTTTAAATTTT
Done.