Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006733.1 Kokia drynarioides strain JFW-HI SEQ_121331, 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: 8334
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36

Warning! 6 characters in sequence are not A, C, G, or T


Found at i:4277 original size:3 final size:3

Alignment explanation


    Indices: 4269--4309  Score: 82
    Period size: 3  Copynumber: 13.7  Consensus size: 3

       4259 CATGTCATGT

                                                                  
       4269 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
          1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG

       4310 TTACCTTAAG


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   38  1.00

ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34


Consensus pattern (3 bp):   
TGA

Found at i:6696 original size:31 final size:31

Alignment explanation


    Indices: 6653--6729  Score: 111
    Period size: 31  Copynumber: 2.5  Consensus size: 31

       6643 GGACCCCAAA

                   *                       
       6653 AAGTTTAAGTACCAACTTAAAAAAAAGTGCC
          1 AAGTTTAGGTACCAACTTAAAAAAAAGTGCC

                               **          
       6684 AAGTTTAGGTACCAACTTAGGAAAAAGTGCC
          1 AAGTTTAGGTACCAACTTAAAAAAAAGTGCC

                            
       6715 AAGTTT-GAGTACCAA
          1 AAGTTTAG-GTACCAA

       6730 ATTTAACCAG


Statistics
Matches: 42,  Mismatches: 3, Indels: 2
        0.89            0.06        0.04

Matches are distributed among these distances:
  30    1  0.02
  31   41  0.98

ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23


Consensus pattern (31 bp):   
AAGTTTAGGTACCAACTTAAAAAAAAGTGCC

Found at i:6744 original size:90 final size:91

Alignment explanation


    Indices: 6598--6790  Score: 219
    Period size: 90  Copynumber: 2.1  Consensus size: 91

       6588 TAAAAAAAGA

                                     *                    *     *            
       6598 TTAGGTACCAAAATAGGAAAAAGAGTCAAGTTCAAGTACCAAATTGGACC-CCAAAAAGTTTAAG
          1 TTAGGTACCAAAATAGGAAAAAGAGCCAAGTTCAAGTACCAAATTGAACCACAAAAAAGTTTAAG

                  *                    
       6662 TACCAACTTA-AAAAAAAGTGCCAAGT
         66 TACCAAATTAGAAAAAAA-TGCCAAGT

                       **          *        **           *     *           * 
       6688 TTAGGTACCAACTTAGGAAAAAGTGCCAAGTTTGAGTACCAAATTTAACCAGAAAAAAGTTTAGG
          1 TTAGGTACCAAAATAGGAAAAAGAGCCAAGTTCAAGTACCAAATTGAACCACAAAAAAGTTTAAG

                       *        *     
       6753 TACCAAATTAGGAAAAAATGTCAAGT
         66 TACCAAATTAGAAAAAAATGCCAAGT

             * *        
       6779 TCAAGTACCAAA
          1 TTAGGTACCAAA

       6791 TATTATATTA


Statistics
Matches: 84,  Mismatches: 17, Indels: 3
        0.81            0.16        0.03

Matches are distributed among these distances:
  90   42  0.50
  91   36  0.43
  92    6  0.07

ACGTcount: A:0.46, C:0.16, G:0.17, T:0.22


Consensus pattern (91 bp):   
TTAGGTACCAAAATAGGAAAAAGAGCCAAGTTCAAGTACCAAATTGAACCACAAAAAAGTTTAAG
TACCAAATTAGAAAAAAATGCCAAGT
Done.