Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000161.1 Kokia drynarioides strain JFW-HI SEQ_110826, 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: 12133
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34


Found at i:3067 original size:4 final size:4

Alignment explanation


    Indices: 3035--3088  Score: 54
    Period size: 4  Copynumber: 13.0  Consensus size: 4

       3025 ATGAACAAAG

                    *        **                                        * 
       3035 GAAA GAAC GAAA GAGG GAGAA GAAAA GAAA GAAA GAAA GAAA GAAA GAGA
          1 GAAA GAAA GAAA GAAA GA-AA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA

                
       3085 GAAA
          1 GAAA

       3089 ATCTTCCATG


Statistics
Matches: 40,  Mismatches: 8, Indels: 4
        0.77            0.15        0.08

Matches are distributed among these distances:
   4   35  0.88
   5    4  0.10
   6    1  0.03

ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00


Consensus pattern (4 bp):   
GAAA

Found at i:5610 original size:22 final size:22

Alignment explanation


    Indices: 5585--5634  Score: 55
    Period size: 22  Copynumber: 2.3  Consensus size: 22

       5575 ATAATATTAT

                   *  *   *       
       5585 TAAAATACCACTTTGGTTAACA
          1 TAAAATAACAATTTAGTTAACA

                *          *      
       5607 TAAATTAACAATTTATTTAACA
          1 TAAAATAACAATTTAGTTAACA

                  
       5629 TAAAAT
          1 TAAAAT

       5635 TTGGTTAAAT


Statistics
Matches: 22,  Mismatches: 6, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36


Consensus pattern (22 bp):   
TAAAATAACAATTTAGTTAACA
Done.