Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011403.1 Kokia drynarioides strain JFW-HI SEQ_126385, 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: 3439
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34


Found at i:367 original size:34 final size:34

Alignment explanation


    Indices: 329--434  Score: 132
    Period size: 34  Copynumber: 3.2  Consensus size: 34

        319 TTATAAATAA

                                              
        329 TATTTAATTATTAAAAACAACCTAAATATTTAAT
          1 TATTTAATTATTAAAAACAACCTAAATATTTAAT

                        *                     
        363 TATTTAATTATTTAAAACAACCT--A-A-TTAAT
          1 TATTTAATTATTAAAAACAACCTAAATATTTAAT

              *              *  *              
        393 TAATTAATTATTAAAAATAGTCC-AAATATTTAAT
          1 TATTTAATTATTAAAAACA-ACCTAAATATTTAAT

                    
        427 TATTTAAT
          1 TATTTAAT

        435 AAAATATTTA


Statistics
Matches: 61,  Mismatches: 6, Indels: 10
        0.79            0.08        0.13

Matches are distributed among these distances:
  30   21  0.34
  31    3  0.05
  32    2  0.03
  33    1  0.02
  34   34  0.56

ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43


Consensus pattern (34 bp):   
TATTTAATTATTAAAAACAACCTAAATATTTAAT

Found at i:501 original size:18 final size:19

Alignment explanation


    Indices: 477--528  Score: 79
    Period size: 18  Copynumber: 2.7  Consensus size: 19

        467 TTTAATTCAA

                               
        477 AATATTTAATTATTTAATT
          1 AATATTTAATTATTTAATT

                       *       
        496 -ATATTTAATTGTTTAATT
          1 AATATTTAATTATTTAATT

                           
        514 AAATATTTAATTATT
          1 -AATATTTAATTATT

        529 AAAAACAACC


Statistics
Matches: 29,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  18   17  0.59
  20   12  0.41

ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58


Consensus pattern (19 bp):   
AATATTTAATTATTTAATT
Done.