Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397634.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1123.0, 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: 3643
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.31

Warning! 637 characters in sequence are not A, C, G, or T


Found at i:584 original size:19 final size:19

Alignment explanation


    Indices: 560--597  Score: 51
    Period size: 19  Copynumber: 2.0  Consensus size: 19

        550 TTTATCTATA

                                
        560 TTATATAAATATTA-ATTTT
          1 TTATAT-AATATTATATTTT

                  *            
        579 TTATATTATATTATATTTT
          1 TTATATAATATTATATTTT

        598 AATATTTATT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  18    6  0.35
  19   11  0.65

ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63


Consensus pattern (19 bp):   
TTATATAATATTATATTTT

Found at i:614 original size:12 final size:12

Alignment explanation


    Indices: 584--643  Score: 52
    Period size: 12  Copynumber: 4.8  Consensus size: 12

        574 ATTTTTTATA

                        
        584 TTATATTATATT
          1 TTATATTATATT

                         
        596 TTAATATT-TATT
          1 TT-ATATTATATT

                          
        608 CTTATATTATATAT
          1 -TTATATTATAT-T

                *       
        622 TTATTTTA-ATT
          1 TTATATTATATT

              *        
        633 ATAATATTATA
          1 -TTATATTATA

        644 AAATATTATT


Statistics
Matches: 39,  Mismatches: 3, Indels: 11
        0.74            0.06        0.21

Matches are distributed among these distances:
  11    1  0.03
  12   19  0.49
  13   18  0.46
  14    1  0.03

ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62


Consensus pattern (12 bp):   
TTATATTATATT

Found at i:614 original size:20 final size:19

Alignment explanation


    Indices: 584--640  Score: 73
    Period size: 19  Copynumber: 3.1  Consensus size: 19

        574 ATTTTTTATA

                *       *      
        584 TTATATTATATTTTAATAT
          1 TTATTTTATATTATAATAT

                                
        603 TTATTCTTATATTAT-ATAT
          1 TTATT-TTATATTATAATAT

                               
        622 TTATTTTA-ATTATAATAT
          1 TTATTTTATATTATAATAT

             
        640 T
          1 T

        641 ATAAAATATT


Statistics
Matches: 34,  Mismatches: 2, Indels: 5
        0.83            0.05        0.12

Matches are distributed among these distances:
  17    5  0.15
  18    8  0.24
  19   13  0.38
  20    8  0.24

ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63


Consensus pattern (19 bp):   
TTATTTTATATTATAATAT

Found at i:639 original size:25 final size:25

Alignment explanation


    Indices: 578--643  Score: 66
    Period size: 25  Copynumber: 2.7  Consensus size: 25

        568 ATATTAATTT

                    *                
        578 TTTA-TATTATATTATATTTTAATA
          1 TTTATTATAATATTATATTTTAATA

                  * *                 
        602 TTTATTCTTATATTATATATTT-AT-
          1 TTTATTATAATATTATAT-TTTAATA

                              
        626 TTTAATTATAATATTATA
          1 TTT-ATTATAATATTATA

        644 AAATATTATT


Statistics
Matches: 36,  Mismatches: 3, Indels: 5
        0.82            0.07        0.11

Matches are distributed among these distances:
  24    7  0.19
  25   26  0.72
  26    3  0.08

ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62


Consensus pattern (25 bp):   
TTTATTATAATATTATATTTTAATA
Done.