Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004828.1 Kokia drynarioides strain JFW-HI SEQ_118470, 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: 1914
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32


Found at i:802 original size:14 final size:13

Alignment explanation


    Indices: 770--813  Score: 54
    Period size: 14  Copynumber: 3.4  Consensus size: 13

        760 TAATAGTAAT

                         
        770 TAATA-TTTTAAA
          1 TAATATTTTTAAA

            *             
        782 AAATATTTTTAACA
          1 TAATATTTTTAA-A

                         
        796 TAATATTTTTAAA
          1 TAATATTTTTAAA

            *    
        809 AAATA
          1 TAATA

        814 GTAATTAATA


Statistics
Matches: 27,  Mismatches: 3, Indels: 3
        0.82            0.09        0.09

Matches are distributed among these distances:
  12    4  0.15
  13   11  0.41
  14   12  0.44

ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45


Consensus pattern (13 bp):   
TAATATTTTTAAA

Found at i:843 original size:20 final size:20

Alignment explanation


    Indices: 811--869  Score: 75
    Period size: 20  Copynumber: 3.0  Consensus size: 20

        801 TTTTTAAAAA

                                 
        811 ATAGTAATTAATATTTTTATT
          1 ATAGTAATTAATATTTTT-TT

              *   *      *      
        832 ATTGT-GTTAATAATTTTTT
          1 ATAGTAATTAATATTTTTTT

                               
        851 ATAGTAATTAATATTTTTT
          1 ATAGTAATTAATATTTTTT

        870 AAAAATAAAT


Statistics
Matches: 31,  Mismatches: 6, Indels: 3
        0.77            0.15        0.08

Matches are distributed among these distances:
  19    6  0.19
  20   21  0.68
  21    4  0.13

ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59


Consensus pattern (20 bp):   
ATAGTAATTAATATTTTTTT

Found at i:866 original size:19 final size:19

Alignment explanation


    Indices: 811--870  Score: 68
    Period size: 19  Copynumber: 3.1  Consensus size: 19

        801 TTTTTAAAAA

                                 
        811 ATAGTAATTAATATTTTTATT
          1 ATAGTAATTAATA-TTTT-TT

              *   *             
        832 ATTGT-GTTAATAATTTTTT
          1 ATAGTAATTAAT-ATTTTTT

                               
        851 ATAGTAATTAATATTTTTT
          1 ATAGTAATTAATATTTTTT

             
        870 A
          1 A

        871 AAAATAAATT


Statistics
Matches: 33,  Mismatches: 4, Indels: 6
        0.77            0.09        0.14

Matches are distributed among these distances:
  19   14  0.42
  20   14  0.42
  21    5  0.15

ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58


Consensus pattern (19 bp):   
ATAGTAATTAATATTTTTT
Done.