Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002998.1 Kokia drynarioides strain JFW-HI SEQ_115490, 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: 5905
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35


Found at i:922 original size:20 final size:20

Alignment explanation


    Indices: 899--937  Score: 60
    Period size: 20  Copynumber: 1.9  Consensus size: 20

        889 GTCCATTCGG

                                
        899 TTAGAACGCTATGAAATACT
          1 TTAGAACGCTATGAAATACT

                    * *        
        919 TTAGAACGTTGTGAAATAC
          1 TTAGAACGCTATGAAATAC

        938 AACTTTCATC


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  20   17  1.00

ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31


Consensus pattern (20 bp):   
TTAGAACGCTATGAAATACT

Found at i:5497 original size:3 final size:3

Alignment explanation


    Indices: 5489--5515  Score: 54
    Period size: 3  Copynumber: 9.0  Consensus size: 3

       5479 TATAAATTAC

                                               
       5489 AAT AAT AAT AAT AAT AAT AAT AAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT

       5516 TGAGTTCTCA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   24  1.00

ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33


Consensus pattern (3 bp):   
AAT

Found at i:5611 original size:21 final size:21

Alignment explanation


    Indices: 5585--5625  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       5575 TGTATGGATT

                   **            
       5585 ACTAAAATTTTTACTTAAAAG
          1 ACTAAAACATTTACTTAAAAG

                                
       5606 ACTAAAACATTTACTTAAAA
          1 ACTAAAACATTTACTTAAAA

       5626 CTTAAAATAG


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.51, C:0.12, G:0.02, T:0.34


Consensus pattern (21 bp):   
ACTAAAACATTTACTTAAAAG
Done.