Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007194.1 Kokia drynarioides strain JFW-HI SEQ_121808, 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: 2161
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27


Found at i:426 original size:15 final size:14

Alignment explanation


    Indices: 406--436  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 14

        396 TGCTCACATC

                           
        406 AAGGGAGTTATAGAT
          1 AAGGGAGTTATA-AT

                          
        421 AAGGGAGTTATAAT
          1 AAGGGAGTTATAAT

              
        435 AA
          1 AA

        437 CAATTAGTAG


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14    4  0.25
  15   12  0.75

ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26


Consensus pattern (14 bp):   
AAGGGAGTTATAAT

Found at i:944 original size:6 final size:6

Alignment explanation


    Indices: 933--963  Score: 53
    Period size: 6  Copynumber: 5.2  Consensus size: 6

        923 GCACCTAAGA

                                      *         
        933 AGAAGG AGAAGG AGAAGG AGAAGA AGAAGG A
          1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG A

        964 AAAACAGGAT


Statistics
Matches: 23,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
   6   23  1.00

ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00


Consensus pattern (6 bp):   
AGAAGG

Found at i:950 original size:12 final size:12

Alignment explanation


    Indices: 929--963  Score: 61
    Period size: 12  Copynumber: 2.9  Consensus size: 12

        919 AGAAGCACCT

                        
        929 AAGAAGAAGGAG
          1 AAGAAGAAGGAG

               *        
        941 AAGGAGAAGGAG
          1 AAGAAGAAGGAG

                       
        953 AAGAAGAAGGA
          1 AAGAAGAAGGA

        964 AAAACAGGAT


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  12   21  1.00

ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00


Consensus pattern (12 bp):   
AAGAAGAAGGAG
Done.