Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401054.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4213.0, 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, 769

Length: 1283
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.19

Warning! 683 characters in sequence are not A, C, G, or T


Found at i:172 original size:9 final size:8

Alignment explanation


    Indices: 157--196  Score: 53
    Period size: 8  Copynumber: 4.9  Consensus size: 8

        147 ATTTGAATTT

                    
        157 TAAAAAAA
          1 TAAAAAAA

                    
        165 TAAAAAAA
          1 TAAAAAAA

                     
        173 TAAAAAATA
          1 TAAAAAA-A

             *    * 
        182 TGAAAATA
          1 TAAAAAAA

                   
        190 TAAAAAA
          1 TAAAAAA

        197 GAGATAAATN


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
   8   21  0.78
   9    6  0.22

ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17


Consensus pattern (8 bp):   
TAAAAAAA

Found at i:187 original size:17 final size:16

Alignment explanation


    Indices: 157--196  Score: 53
    Period size: 17  Copynumber: 2.4  Consensus size: 16

        147 ATTTGAATTT

                            
        157 TAAAAAAATAAAAAAA
          1 TAAAAAAATAAAAAAA

                      *    * 
        173 TAAAAAATATGAAAATA
          1 TAAAAAA-ATAAAAAAA

                   
        190 TAAAAAA
          1 TAAAAAA

        197 GAGATAAATN


Statistics
Matches: 21,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  16    7  0.33
  17   14  0.67

ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17


Consensus pattern (16 bp):   
TAAAAAAATAAAAAAA

Found at i:725 original size:4 final size:4

Alignment explanation


    Indices: 711--745  Score: 52
    Period size: 4  Copynumber: 8.5  Consensus size: 4

        701 TACTAGTGAC

                                  *                    
        711 CTTT CCTTT CTTT CTTT CCTT CTTT CTTT CTTT CT
          1 CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT

        746 CTTTTTTTTT


Statistics
Matches: 28,  Mismatches: 2, Indels: 1
        0.90            0.06        0.03

Matches are distributed among these distances:
   4   24  0.86
   5    4  0.14

ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69


Consensus pattern (4 bp):   
CTTT

Found at i:756 original size:12 final size:14

Alignment explanation


    Indices: 711--749  Score: 53
    Period size: 16  Copynumber: 2.7  Consensus size: 14

        701 TACTAGTGAC

                          
        711 CTTTC-CTTTCTTT
          1 CTTTCTCTTTCTTT

                            
        724 CTTTCCTTCTTTCTTT
          1 CTTT-C-TCTTTCTTT

                      
        740 CTTTCTCTTT
          1 CTTTCTCTTT

        750 TTTTTTCCTA


Statistics
Matches: 23,  Mismatches: 0, Indels: 5
        0.82            0.00        0.18

Matches are distributed among these distances:
  13    4  0.17
  14    6  0.26
  15    1  0.04
  16   12  0.52

ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69


Consensus pattern (14 bp):   
CTTTCTCTTTCTTT
Done.