Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001251.1 Kokia drynarioides strain JFW-HI SEQ_112622, 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: 8561
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--33  Score: 66
    Period size: 2  Copynumber: 16.5  Consensus size: 2

                                                             
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

         34 GGATAAGATG


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   31  1.00

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


Consensus pattern (2 bp):   
TA

Found at i:2378 original size:131 final size:131

Alignment explanation


    Indices: 2033--2370  Score: 631
    Period size: 131  Copynumber: 2.6  Consensus size: 131

       2023 TATAAGTATG

                             *                               *               
       2033 TTTAATAAATGTTAATTGAGTCTTAGTTCAGTTAGTATCGACATTGTTGCTAGTGCAGAAAAATG
          1 TTTAATAAATGTTAATTAAGTCTTAGTTCAGTTAGTATCGACATTGTTGTTAGTGCAGAAAAATG

                                                                             
       2098 TGCGTTCGAGCGCGCTAAATGTTATAGCGGCATATAAGTATGTTTAATAAATGTTAATTGACTCT
         66 TGCGTTCGAGCGCGCTAAATGTTATAGCGGCATATAAGTATGTTTAATAAATGTTAATTGACTCT

             
       2163 A
        131 A

                                              *                              
       2164 TTTAATAAATGTTAATTAAGTCTTAGTTCAGTTAATATCGACATTGTTGTTAGTGCAGAAAAATG
          1 TTTAATAAATGTTAATTAAGTCTTAGTTCAGTTAGTATCGACATTGTTGTTAGTGCAGAAAAATG

                                                                             
       2229 TGCGTTCGAGCGCGCTAAATGTTATAGCGGCATATAAGTATGTTTAATAAATGTTAATTGACTCT
         66 TGCGTTCGAGCGCGCTAAATGTTATAGCGGCATATAAGTATGTTTAATAAATGTTAATTGACTCT

             
       2294 A
        131 A

                                 *                                           
       2295 TTTAATAAATGTTAATTAAGTTTTAGTTCAGTTAGTATCGACATTGTTGTTAGTGCAGAAAAATG
          1 TTTAATAAATGTTAATTAAGTCTTAGTTCAGTTAGTATCGACATTGTTGTTAGTGCAGAAAAATG

                  *    
       2360 TGCGTTAGAGC
         66 TGCGTTCGAGC

       2371 TTGCTAAAGT


Statistics
Matches: 201,  Mismatches: 6, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
 131  201  1.00

ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38


Consensus pattern (131 bp):   
TTTAATAAATGTTAATTAAGTCTTAGTTCAGTTAGTATCGACATTGTTGTTAGTGCAGAAAAATG
TGCGTTCGAGCGCGCTAAATGTTATAGCGGCATATAAGTATGTTTAATAAATGTTAATTGACTCT
A

Found at i:6780 original size:20 final size:20

Alignment explanation


    Indices: 6743--6782  Score: 55
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       6733 AAATTTAAAA

                                
       6743 AATAATAATATTATTATATT
          1 AATAATAATATTATTATATT

                      *          
       6763 AATATATAATTTTA-TATATT
          1 AATA-ATAATATTATTATATT

       6783 TTTAAAGAGA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  20   10  0.56
  21    8  0.44

ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53


Consensus pattern (20 bp):   
AATAATAATATTATTATATT
Done.