Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000406.1 Kokia drynarioides strain JFW-HI SEQ_111222, 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: 12297
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35


Found at i:864 original size:24 final size:24

Alignment explanation


    Indices: 819--864  Score: 58
    Period size: 25  Copynumber: 1.9  Consensus size: 24

        809 TTAAGTCAAC

                    *      *        
        819 AAATAATTTAAATTTTATAAAAAA
          1 AAATAATTCAAATTTCATAAAAAA

                                   
        843 AAATATATTCAAATTTCA-AAAA
          1 AAATA-ATTCAAATTTCATAAAA

        865 TATATAACAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 2
        0.83            0.09        0.09

Matches are distributed among these distances:
  24    9  0.47
  25   10  0.53

ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35


Consensus pattern (24 bp):   
AAATAATTCAAATTTCATAAAAAA

Found at i:3244 original size:28 final size:28

Alignment explanation


    Indices: 3200--3256  Score: 71
    Period size: 28  Copynumber: 2.0  Consensus size: 28

       3190 ATGCTAATAA

                             *          
       3200 TTATTATTATTTGGTCAGATGATTAATG
          1 TTATTATTATTTGGTCAAATGATTAATG

                         *       *       
       3228 TTATTATT-TTATTGTCAAATTATTAATG
          1 TTATTATTATT-TGGTCAAATGATTAATG

             
       3256 T
          1 T

       3257 GATTGAGTAT


Statistics
Matches: 25,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  27    2  0.08
  28   23  0.92

ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54


Consensus pattern (28 bp):   
TTATTATTATTTGGTCAAATGATTAATG
Done.