Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000631.1 Kokia drynarioides strain JFW-HI SEQ_111591, 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: 2032
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39


Found at i:939 original size:28 final size:28

Alignment explanation


    Indices: 903--956  Score: 81
    Period size: 28  Copynumber: 1.9  Consensus size: 28

        893 TAAAAAATAA

                           *            
        903 AATAAAAAAAATTCATAAAATAAAAAAG
          1 AATAAAAAAAATTCAAAAAATAAAAAAG

                *        *            
        931 AATATAAAAAATTTAAAAAATAAAAA
          1 AATAAAAAAAATTCAAAAAATAAAAA

        957 TTCAGAAAGC


Statistics
Matches: 23,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  28   23  1.00

ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20


Consensus pattern (28 bp):   
AATAAAAAAAATTCAAAAAATAAAAAAG

Found at i:941 original size:19 final size:18

Alignment explanation


    Indices: 901--942  Score: 50
    Period size: 18  Copynumber: 2.3  Consensus size: 18

        891 TTTAAAAAAT

                             *
        901 AAAATAAAAAAAATTCAT
          1 AAAATAAAAAAAATTCAA

                                
        919 AAAATAAAAAAGAATAT-AA
          1 AAAATAAAAAA-AAT-TCAA

                 
        938 AAAAT
          1 AAAAT

        943 TTAAAAAATA


Statistics
Matches: 21,  Mismatches: 1, Indels: 3
        0.84            0.04        0.12

Matches are distributed among these distances:
  18   11  0.52
  19    9  0.43
  20    1  0.05

ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19


Consensus pattern (18 bp):   
AAAATAAAAAAAATTCAA

Found at i:1233 original size:20 final size:22

Alignment explanation


    Indices: 1190--1232  Score: 77
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       1180 TTGAAGTTCA

                      *           
       1190 AACTATTTTTTAAATTATATAT
          1 AACTATTTTTGAAATTATATAT

                                 
       1212 AACTATTTTTGAAATTATATA
          1 AACTATTTTTGAAATTATATA

       1233 AGTTTTAAAT


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  22   20  1.00

ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51


Consensus pattern (22 bp):   
AACTATTTTTGAAATTATATAT
Done.