Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402159.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5249.0, 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, 693

Length: 1156
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28


Found at i:155 original size:28 final size:28

Alignment explanation


    Indices: 115--168  Score: 99
    Period size: 28  Copynumber: 1.9  Consensus size: 28

        105 AGTGATGCAA

                                        
        115 AGGTTCTGCTTGATCCTTGAAAAGGCAG
          1 AGGTTCTGCTTGATCCTTGAAAAGGCAG

                 *                    
        143 AGGTTTTGCTTGATCCTTGAAAAGGC
          1 AGGTTCTGCTTGATCCTTGAAAAGGC

        169 TAAATGTTAG


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  28   25  1.00

ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31


Consensus pattern (28 bp):   
AGGTTCTGCTTGATCCTTGAAAAGGCAG

Found at i:181 original size:28 final size:28

Alignment explanation


    Indices: 111--181  Score: 83
    Period size: 28  Copynumber: 2.5  Consensus size: 28

        101 AGGTAGTGAT

                                         
        111 GCAAAGGTTCT-GCTTGATCCTTGAAAAG
          1 GCAAAGGTT-TAGCTTGATCCTTGAAAAG

               *      *                 
        139 GCAGAGGTTTTGCTTGATCCTTGAAAAG
          1 GCAAAGGTTTAGCTTGATCCTTGAAAAG

                  *         
        167 GCTAAATG-TTAGCTT
          1 GC-AAAGGTTTAGCTT

        182 TATTCTTGTT


Statistics
Matches: 37,  Mismatches: 4, Indels: 4
        0.82            0.09        0.09

Matches are distributed among these distances:
  27    1  0.03
  28   33  0.89
  29    3  0.08

ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32


Consensus pattern (28 bp):   
GCAAAGGTTTAGCTTGATCCTTGAAAAG
Done.