Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000421.1 Kokia drynarioides strain JFW-HI SEQ_111250, 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: 21285
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32


Found at i:6894 original size:23 final size:23

Alignment explanation


    Indices: 6866--6922  Score: 69
    Period size: 23  Copynumber: 2.5  Consensus size: 23

       6856 CGTCCATCCT

                             *     
       6866 TGCTGACTAGACCTTCTGGAAGC
          1 TGCTGACTAGACCTTCTAGAAGC

                   **  *        *  
       6889 TGCTGACGGGATCTTCTAGATGC
          1 TGCTGACTAGACCTTCTAGAAGC

                       
       6912 TGCTGACTAGA
          1 TGCTGACTAGA

       6923 TGCCACGTCA


Statistics
Matches: 27,  Mismatches: 7, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  23   27  1.00

ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28


Consensus pattern (23 bp):   
TGCTGACTAGACCTTCTAGAAGC

Found at i:12527 original size:48 final size:48

Alignment explanation


    Indices: 12456--12552  Score: 176
    Period size: 48  Copynumber: 2.0  Consensus size: 48

      12446 TTTAACCTTA

                   *                                        
      12456 ATTAATCTTACCTATATTCAATATATTTCATGATAAGTCACCCACTTT
          1 ATTAATCCTACCTATATTCAATATATTTCATGATAAGTCACCCACTTT

                       *                                    
      12504 ATTAATCCTACTTATATTCAATATATTTCATGATAAGTCACCCACTTT
          1 ATTAATCCTACCTATATTCAATATATTTCATGATAAGTCACCCACTTT

             
      12552 A
          1 A

      12553 ATACTTTAGG


Statistics
Matches: 47,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  48   47  1.00

ACGTcount: A:0.34, C:0.21, G:0.04, T:0.41


Consensus pattern (48 bp):   
ATTAATCCTACCTATATTCAATATATTTCATGATAAGTCACCCACTTT

Found at i:19751 original size:14 final size:13

Alignment explanation


    Indices: 19724--19748  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

      19714 CTCCATATTA

                         
      19724 TCTTTTAAAAAAT
          1 TCTTTTAAAAAAT

                        
      19737 TCTTTTAAAAAA
          1 TCTTTTAAAAAA

      19749 ATTTCATTTT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44


Consensus pattern (13 bp):   
TCTTTTAAAAAAT
Done.