Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003863.1 Kokia drynarioides strain JFW-HI SEQ_116894, 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: 3559
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36


Found at i:431 original size:15 final size:16

Alignment explanation


    Indices: 413--454  Score: 50
    Period size: 16  Copynumber: 2.7  Consensus size: 16

        403 TTCTTCCTTC

                *          *
        413 TTTTGTTTCTTT-TTT
          1 TTTTATTTCTTTATTA

                *           
        428 TTTTCTTTCTTTATTA
          1 TTTTATTTCTTTATTA

                       
        444 TTTTATTTCTT
          1 TTTTATTTCTT

        455 ATATATATAT


Statistics
Matches: 23,  Mismatches: 3, Indels: 1
        0.85            0.11        0.04

Matches are distributed among these distances:
  15   11  0.48
  16   12  0.52

ACGTcount: A:0.07, C:0.10, G:0.02, T:0.81


Consensus pattern (16 bp):   
TTTTATTTCTTTATTA

Found at i:461 original size:2 final size:2

Alignment explanation


    Indices: 454--486  Score: 66
    Period size: 2  Copynumber: 16.5  Consensus size: 2

        444 TTTTATTTCT

                                                             
        454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

        487 TAGTTAATAA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   31  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:514 original size:14 final size:14

Alignment explanation


    Indices: 491--525  Score: 52
    Period size: 14  Copynumber: 2.5  Consensus size: 14

        481 ATATATTAGT

                          
        491 TAATAATAATAAAA
          1 TAATAATAATAAAA

                 *    *   
        505 TAATATTAATTAAA
          1 TAATAATAATAAAA

                   
        519 TAATAAT
          1 TAATAAT

        526 TTATATTATT


Statistics
Matches: 18,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  14   18  1.00

ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37


Consensus pattern (14 bp):   
TAATAATAATAAAA
Done.