Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008798.1 Kokia drynarioides strain JFW-HI SEQ_123481, 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: 1856
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33


Found at i:337 original size:8 final size:8

Alignment explanation


    Indices: 324--366  Score: 63
    Period size: 8  Copynumber: 5.6  Consensus size: 8

        314 GTTGAATAAA

                    
        324 AGAAAAAG
          1 AGAAAAAG

                    
        332 AGAAAAAG
          1 AGAAAAAG

                    
        340 AGAAAAAG
          1 AGAAAAAG

                    
        348 AG-AAAAG
          1 AGAAAAAG

                   *
        355 A-AAAAAA
          1 AGAAAAAG

                 
        362 AGAAA
          1 AGAAA

        367 TATTGCTATA


Statistics
Matches: 32,  Mismatches: 1, Indels: 4
        0.86            0.03        0.11

Matches are distributed among these distances:
   7   11  0.34
   8   21  0.66

ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00


Consensus pattern (8 bp):   
AGAAAAAG

Found at i:365 original size:14 final size:14

Alignment explanation


    Indices: 321--366  Score: 58
    Period size: 14  Copynumber: 3.2  Consensus size: 14

        311 AATGTTGAAT

                          
        321 AAAAG-AAAAAGAG
          1 AAAAGAAAAAAGAG

                            
        334 AAAAAGAGAAAAAGAG
          1 -AAAAGA-AAAAAGAG

                       *  
        350 AAAAGAAAAAAAAG
          1 AAAAGAAAAAAGAG

               
        364 AAA
          1 AAA

        367 TATTGCTATA


Statistics
Matches: 29,  Mismatches: 1, Indels: 4
        0.85            0.03        0.12

Matches are distributed among these distances:
  14   15  0.52
  15    6  0.21
  16    8  0.28

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


Consensus pattern (14 bp):   
AAAAGAAAAAAGAG
Done.