Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006253.1 Kokia drynarioides strain JFW-HI SEQ_120824, 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: 18380
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30


Found at i:16731 original size:24 final size:24

Alignment explanation


    Indices: 16696--16761  Score: 116
    Period size: 24  Copynumber: 2.8  Consensus size: 24

      16686 AAGTATATAT

                *                   
      16696 ATTAAATA-ATATTGTTTTCCAAA
          1 ATTATATAGATATTGTTTTCCAAA

                                    
      16719 ATTATATAGATATTGTTTTCCAAA
          1 ATTATATAGATATTGTTTTCCAAA

                               
      16743 ATTATATAGATATTGTTTT
          1 ATTATATAGATATTGTTTT

      16762 GGTACTGTCA


Statistics
Matches: 41,  Mismatches: 1, Indels: 1
        0.95            0.02        0.02

Matches are distributed among these distances:
  23    7  0.17
  24   34  0.83

ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48


Consensus pattern (24 bp):   
ATTATATAGATATTGTTTTCCAAA

Found at i:16852 original size:10 final size:10

Alignment explanation


    Indices: 16837--16865  Score: 51
    Period size: 9  Copynumber: 3.0  Consensus size: 10

      16827 GAGATCCATT

                      
      16837 TTTTTTTAAA
          1 TTTTTTTAAA

                      
      16847 TTTTTTT-AA
          1 TTTTTTTAAA

                      
      16856 TTTTTTTAAA
          1 TTTTTTTAAA

      16866 CAGTAAATTC


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
   9    9  0.50
  10    9  0.50

ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72


Consensus pattern (10 bp):   
TTTTTTTAAA

Found at i:17469 original size:5 final size:5

Alignment explanation


    Indices: 17459--17483  Score: 50
    Period size: 5  Copynumber: 5.0  Consensus size: 5

      17449 TGAGTTAAAT

                                         
      17459 GAAAA GAAAA GAAAA GAAAA GAAAA
          1 GAAAA GAAAA GAAAA GAAAA GAAAA

      17484 ACACCATTGA


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   5   20  1.00

ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00


Consensus pattern (5 bp):   
GAAAA

Done.