Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005679.1 Kokia drynarioides strain JFW-HI SEQ_119869, 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, 711

Length: 1186
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37


Found at i:30 original size:7 final size:7

Alignment explanation


    Indices: 20--50  Score: 53
    Period size: 7  Copynumber: 4.4  Consensus size: 7

         10 GGGGTTGGGG

                 * 
         20 TTAGGTT
          1 TTAGGGT

                   
         27 TTAGGGT
          1 TTAGGGT

                   
         34 TTAGGGT
          1 TTAGGGT

                   
         41 TTAGGGT
          1 TTAGGGT

               
         48 TTA
          1 TTA

         51 AGGCTTATGC


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
   7   23  1.00

ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48


Consensus pattern (7 bp):   
TTAGGGT

Found at i:40 original size:20 final size:20

Alignment explanation


    Indices: 3--41  Score: 51
    Period size: 20  Copynumber: 1.9  Consensus size: 20

          1 AG

                  *      *      
          3 GGTTTTGGGGGTTGGGGTTA
          1 GGTTTTAGGGGTTAGGGTTA

                      *        
         23 GGTTTTAGGGTTTAGGGTT
          1 GGTTTTAGGGGTTAGGGTT

         42 TAGGGTTTAA


Statistics
Matches: 16,  Mismatches: 3, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  20   16  1.00

ACGTcount: A:0.08, C:0.00, G:0.49, T:0.44


Consensus pattern (20 bp):   
GGTTTTAGGGGTTAGGGTTA

Found at i:69 original size:7 final size:7

Alignment explanation


    Indices: 59--94  Score: 72
    Period size: 7  Copynumber: 5.1  Consensus size: 7

         49 TAAGGCTTAT

                   
         59 GCTTGGG
          1 GCTTGGG

                   
         66 GCTTGGG
          1 GCTTGGG

                   
         73 GCTTGGG
          1 GCTTGGG

                   
         80 GCTTGGG
          1 GCTTGGG

                   
         87 GCTTGGG
          1 GCTTGGG

             
         94 G
          1 G

         95 TTTAGGGTTT


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   29  1.00

ACGTcount: A:0.00, C:0.14, G:0.58, T:0.28


Consensus pattern (7 bp):   
GCTTGGG

Done.