Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009944.1 Kokia drynarioides strain JFW-HI SEQ_124687, 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: 3344
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38

Warning! 15 characters in sequence are not A, C, G, or T


Found at i:2946 original size:13 final size:13

Alignment explanation


    Indices: 2917--2950  Score: 54
    Period size: 11  Copynumber: 2.8  Consensus size: 13

       2907 AGTTTTTTTT

                         
       2917 AAAAAAATACGAC
          1 AAAAAAATACGAC

                         
       2930 --AAAAATACGAC
          1 AAAAAAATACGAC

                      
       2941 AAAAAAATAC
          1 AAAAAAATAC

       2951 CTGACACCNN


Statistics
Matches: 19,  Mismatches: 0, Indels: 4
        0.83            0.00        0.17

Matches are distributed among these distances:
  11   11  0.58
  13    8  0.42

ACGTcount: A:0.71, C:0.15, G:0.06, T:0.09


Consensus pattern (13 bp):   
AAAAAAATACGAC

Found at i:3253 original size:17 final size:18

Alignment explanation


    Indices: 3231--3264  Score: 61
    Period size: 17  Copynumber: 1.9  Consensus size: 18

       3221 ATGAAGGAAA

                              
       3231 AAAGAAAGAAA-AAAGAG
          1 AAAGAAAGAAATAAAGAG

                             
       3248 AAAGAAAGAAATAAAGA
          1 AAAGAAAGAAATAAAGA

       3265 AGGAAGAAGG


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

Matches are distributed among these distances:
  17   11  0.69
  18    5  0.31

ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03


Consensus pattern (18 bp):   
AAAGAAAGAAATAAAGAG

Found at i:3281 original size:9 final size:9

Alignment explanation


    Indices: 3267--3297  Score: 53
    Period size: 9  Copynumber: 3.4  Consensus size: 9

       3257 AATAAAGAAG

                     
       3267 GAAGAAGGA
          1 GAAGAAGGA

                    *
       3276 GAAGAAGGG
          1 GAAGAAGGA

                     
       3285 GAAGAAGGA
          1 GAAGAAGGA

                
       3294 GAAG
          1 GAAG

       3298 GAAAAAAAAA


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
   9   20  1.00

ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00


Consensus pattern (9 bp):   
GAAGAAGGA
Done.