Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399130.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2405.0, 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: 10873
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.23

Warning! 3909 characters in sequence are not A, C, G, or T


Found at i:2724 original size:19 final size:18

Alignment explanation


    Indices: 2687--2734  Score: 53
    Period size: 19  Copynumber: 2.7  Consensus size: 18

       2677 CTAGAACTTA

                           *  
       2687 AAAAAGA-AAAAGAAGAG
          1 AAAAAGAGAAAAGAAAAG

              *                
       2704 AACAAGAGAAAAGCAAAAG
          1 AAAAAGAGAAAAG-AAAAG

                 *      
       2723 AAAAAAAGAAAA
          1 AAAAAGAGAAAA

       2735 ACATATCTTT


Statistics
Matches: 25,  Mismatches: 4, Indels: 2
        0.81            0.13        0.06

Matches are distributed among these distances:
  17    6  0.24
  18    5  0.20
  19   14  0.56

ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00


Consensus pattern (18 bp):   
AAAAAGAGAAAAGAAAAG

Found at i:8185 original size:72 final size:73

Alignment explanation


    Indices: 8054--8225  Score: 222
    Period size: 72  Copynumber: 2.4  Consensus size: 73

       8044 TTATCACTTT

                    *    *      *                                        *   
       8054 TGGCAGTAGGCTCATAGTCGGCTAACAAAAATTCATAGTCAATTAAGTCGTTTCTGTCTCTGAAC
          1 TGGCAGTAAGCTCTTAGTCGACTAACAAAAATTCATAGTCAATTAAGTCGTTTCTGTCTCTAAAC

                    
       8119 CCA-TTTC
         66 CCAGTTTC

               *                           *  ** *                           
       8126 TGATC-GTAAGCTCTTAGTCGACTAACAAAACTTTTTGGTCAATTAAGTCGTTTCTGTCTCTAAA
          1 TG-GCAGTAAGCTCTTAGTCGACTAACAAAAATTCATAGTCAATTAAGTCGTTTCTGTCTCTAAA

                     
       8190 CCCAGTTTC
         65 CCCAGTTTC

                        *         *    
       8199 TGGCAGTAAGCTTTTAGTCGACGAACA
          1 TGGCAGTAAGCTCTTAGTCGACTAACA

       8226 TTGTCTCTTA


Statistics
Matches: 85,  Mismatches: 12, Indels: 5
        0.83            0.12        0.05

Matches are distributed among these distances:
  72   58  0.68
  73   27  0.32

ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33


Consensus pattern (73 bp):   
TGGCAGTAAGCTCTTAGTCGACTAACAAAAATTCATAGTCAATTAAGTCGTTTCTGTCTCTAAAC
CCAGTTTC

Done.