Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009737.1 Kokia drynarioides strain JFW-HI SEQ_124456, 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: 2466
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35


Found at i:687 original size:21 final size:20

Alignment explanation


    Indices: 663--735  Score: 65
    Period size: 21  Copynumber: 3.5  Consensus size: 20

        653 AAAAAAAGTC

                                 
        663 AAAAAAAGAAAAAATAAATAA
          1 AAAAAAAGAAAAAATAAA-AA

                 **         **   
        684 AAAAATTGAAAAAATTTGAAA
          1 AAAAAAAGAAAAAA-TAAAAA

                     *            
        705 AAAAAAAGAGAAAATGAGAAAA
          1 AAAAAAAGAAAAAAT-A-AAAA

                     
        727 AAAAAAAGA
          1 AAAAAAAGA

        736 GAAGAAAAAG


Statistics
Matches: 40,  Mismatches: 9, Indels: 5
        0.74            0.17        0.09

Matches are distributed among these distances:
  20    1  0.03
  21   25  0.62
  22   14  0.35

ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11


Consensus pattern (20 bp):   
AAAAAAAGAAAAAATAAAAA

Found at i:751 original size:22 final size:22

Alignment explanation


    Indices: 702--752  Score: 66
    Period size: 22  Copynumber: 2.3  Consensus size: 22

        692 AAAAAATTTG

                             **   
        702 AAAAAAAAAAGAGAAAATGAGA
          1 AAAAAAAAAAGAGAAAAAAAGA

                                   
        724 AAAAAAAAAAGAGAAGAAAAAGA
          1 AAAAAAAAAAGAGAA-AAAAAGA

            *     
        747 CAAAAA
          1 AAAAAA

        753 TATGTTTGGG


Statistics
Matches: 25,  Mismatches: 3, Indels: 1
        0.86            0.10        0.03

Matches are distributed among these distances:
  22   15  0.60
  23   10  0.40

ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02


Consensus pattern (22 bp):   
AAAAAAAAAAGAGAAAAAAAGA
Done.