Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000066.1 Kokia drynarioides strain JFW-HI SEQ_110616, 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: 2861
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37


Found at i:69 original size:21 final size:21

Alignment explanation


    Indices: 28--81  Score: 58
    Period size: 22  Copynumber: 2.6  Consensus size: 21

         18 AATGAGAAGG

                   *     *       
         28 AGTAAAAGT-TTTTGAGAAAA
          1 AGTAAAAATATTTGGAGAAAA

                                  
         48 AGTAAAAATATTTGGAGTAAAA
          1 AGTAAAAATATTTGGAG-AAAA

                         
         70 A-TATAAAATATT
          1 AGTA-AAAATATT

         82 ATAATTTAAT


Statistics
Matches: 29,  Mismatches: 2, Indels: 4
        0.83            0.06        0.11

Matches are distributed among these distances:
  20    8  0.28
  21    8  0.28
  22   13  0.45

ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31


Consensus pattern (21 bp):   
AGTAAAAATATTTGGAGAAAA

Found at i:535 original size:18 final size:18

Alignment explanation


    Indices: 512--547  Score: 54
    Period size: 18  Copynumber: 2.0  Consensus size: 18

        502 TGAAGCATCG

                   *     *    
        512 TTTTAATTTTATTTATAT
          1 TTTTAATATTATTCATAT

                              
        530 TTTTAATATTATTCATAT
          1 TTTTAATATTATTCATAT

        548 ACCTTTATAA


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67


Consensus pattern (18 bp):   
TTTTAATATTATTCATAT
Done.