Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005668.1 Kokia drynarioides strain JFW-HI SEQ_119843, 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: 16650
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:8889 original size:2 final size:2

Alignment explanation


    Indices: 8884--8910  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       8874 AGTTCATCTT

                                                    
       8884 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 T

       8911 GTAAAAGATA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

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


Consensus pattern (2 bp):   
TA

Found at i:9356 original size:42 final size:42

Alignment explanation


    Indices: 9282--9362  Score: 99
    Period size: 42  Copynumber: 1.9  Consensus size: 42

       9272 AATAAAGAGC

                  *                    *     *        
       9282 TTAAGATTTATTCAAGGAAAGAACAGCTATAATGCAACAGAA
          1 TTAAGACTTATTCAAGGAAAGAACAGCAATAATACAACAGAA

                        *   *     **               
       9324 TTAAGACTTATTTAAGTAAAGAGTAGCAATAATACAACA
          1 TTAAGACTTATTCAAGGAAAGAACAGCAATAATACAACA

       9363 AAATCTTTAT


Statistics
Matches: 32,  Mismatches: 7, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  42   32  1.00

ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26


Consensus pattern (42 bp):   
TTAAGACTTATTCAAGGAAAGAACAGCAATAATACAACAGAA

Found at i:13372 original size:3 final size:3

Alignment explanation


    Indices: 13364--13392  Score: 58
    Period size: 3  Copynumber: 9.7  Consensus size: 3

      13354 TTATTTATTA

                                                  
      13364 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA

      13393 GATTTCTTAT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   26  1.00

ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31


Consensus pattern (3 bp):   
AAT

Found at i:15537 original size:2 final size:2

Alignment explanation


    Indices: 15530--15554  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

      15520 GTCATTAAAA

                                                 
      15530 AG AG AG AG AG AG AG AG AG AG AG AG A
          1 AG AG AG AG AG AG AG AG AG AG AG AG A

      15555 ATAAAACGTT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

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


Consensus pattern (2 bp):   
AG

Done.