Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006351.1 Kokia drynarioides strain JFW-HI SEQ_120927, 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: 13341
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35

Warning! 81 characters in sequence are not A, C, G, or T


Found at i:3767 original size:23 final size:24

Alignment explanation


    Indices: 3741--3788  Score: 62
    Period size: 23  Copynumber: 2.0  Consensus size: 24

       3731 TGAATTTACT

                       *            
       3741 AAAAATTAAAATAGAT-TTTTATC
          1 AAAAATTAAAAGAGATATTTTATC

                *  *                
       3764 AAAATTTCAAAGAGATATTTTATC
          1 AAAAATTAAAAGAGATATTTTATC

             
       3788 A
          1 A

       3789 TTTTCTGAAA


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  23   13  0.62
  24    8  0.38

ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38


Consensus pattern (24 bp):   
AAAAATTAAAAGAGATATTTTATC

Found at i:10859 original size:38 final size:38

Alignment explanation


    Indices: 10813--10895  Score: 141
    Period size: 38  Copynumber: 2.2  Consensus size: 38

      10803 ATATTTTAAC

                                                   
      10813 TTTTAAAATGATAAGATTTTAATTTAATAT-TTTAAAAA
          1 TTTTAAAATGATAAGATTTTAATTTAAT-TCTTTAAAAA

                                                  
      10851 TTTTAAAATGATAAGATTTTAATTTAATTCTTTAAAAA
          1 TTTTAAAATGATAAGATTTTAATTTAATTCTTTAAAAA

              *    
      10889 TTATAAA
          1 TTTTAAA

      10896 GGTATTACTT


Statistics
Matches: 43,  Mismatches: 1, Indels: 2
        0.93            0.02        0.04

Matches are distributed among these distances:
  37    1  0.02
  38   42  0.98

ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47


Consensus pattern (38 bp):   
TTTTAAAATGATAAGATTTTAATTTAATTCTTTAAAAA
Done.