Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008746.1 Kokia drynarioides strain JFW-HI SEQ_123428, 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: 7854
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31


Found at i:5756 original size:22 final size:22

Alignment explanation


    Indices: 5728--5798  Score: 88
    Period size: 22  Copynumber: 3.2  Consensus size: 22

       5718 AATGCACAAA

                           ***    
       5728 TAAACGGAGAGCACAGGGGTGC
          1 TAAACGGAGAGCACAAACGTGC

                                  
       5750 TAAACGGAGAGCACAAACGTGC
          1 TAAACGGAGAGCACAAACGTGC

               *              *    
       5772 TAATCGGAGAGCACAATATGTGC
          1 TAAACGGAGAGCACAA-ACGTGC

                
       5795 TAAA
          1 TAAA

       5799 TAATCAGAGA


Statistics
Matches: 42,  Mismatches: 6, Indels: 1
        0.86            0.12        0.02

Matches are distributed among these distances:
  22   34  0.81
  23    8  0.19

ACGTcount: A:0.38, C:0.18, G:0.30, T:0.14


Consensus pattern (22 bp):   
TAAACGGAGAGCACAAACGTGC

Found at i:7790 original size:24 final size:24

Alignment explanation


    Indices: 7762--7820  Score: 73
    Period size: 24  Copynumber: 2.5  Consensus size: 24

       7752 TAGACTAATA

                   **               
       7762 AGAGTTTGGCTCAAACAAATAAAC
          1 AGAGTTTAACTCAAACAAATAAAC

                     * *      *     
       7786 AGAGTTTAATTGAAACAATTAAAC
          1 AGAGTTTAACTCAAACAAATAAAC

                       
       7810 AGAGTTTAACT
          1 AGAGTTTAACT

       7821 GAAAGATTGT


Statistics
Matches: 29,  Mismatches: 6, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  24   29  1.00

ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27


Consensus pattern (24 bp):   
AGAGTTTAACTCAAACAAATAAAC

Found at i:7823 original size:24 final size:24

Alignment explanation


    Indices: 7774--7824  Score: 84
    Period size: 24  Copynumber: 2.1  Consensus size: 24

       7764 AGTTTGGCTC

                                 *  
       7774 AAACAAATAAACAGAGTTTAATTG
          1 AAACAAATAAACAGAGTTTAACTG

                  *                 
       7798 AAACAATTAAACAGAGTTTAACTG
          1 AAACAAATAAACAGAGTTTAACTG

               
       7822 AAA
          1 AAA

       7825 GATTGTTTCT


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  24   25  1.00

ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24


Consensus pattern (24 bp):   
AAACAAATAAACAGAGTTTAACTG
Done.