Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000043.1 Kokia drynarioides strain JFW-HI SEQ_83801, 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: 5108
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34


Found at i:2371 original size:3 final size:3

Alignment explanation


    Indices: 2365--2392  Score: 56
    Period size: 3  Copynumber: 9.3  Consensus size: 3

       2355 AATAATACTA

                                                 
       2365 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
          1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A

       2393 GAAGAGAAAG


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   25  1.00

ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32


Consensus pattern (3 bp):   
ATG

Found at i:2677 original size:3 final size:3

Alignment explanation


    Indices: 2669--2700  Score: 64
    Period size: 3  Copynumber: 10.7  Consensus size: 3

       2659 TATTGCAACT

                                                      
       2669 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
          1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA

       2701 GAAGAAGTTG


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   29  1.00

ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34


Consensus pattern (3 bp):   
TAA

Found at i:4187 original size:16 final size:17

Alignment explanation


    Indices: 4166--4197  Score: 57
    Period size: 16  Copynumber: 1.9  Consensus size: 17

       4156 AATCAATGGA

                             
       4166 AATGAAAAAG-AGAGAG
          1 AATGAAAAAGTAGAGAG

                            
       4182 AATGAAAAAGTAGAGA
          1 AATGAAAAAGTAGAGA

       4198 AGAAGAGGAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  16   10  0.67
  17    5  0.33

ACGTcount: A:0.62, C:0.00, G:0.28, T:0.09


Consensus pattern (17 bp):   
AATGAAAAAGTAGAGAG

Done.