Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003229.1 Kokia drynarioides strain JFW-HI SEQ_115873, 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: 4255
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36


Found at i:2482 original size:18 final size:18

Alignment explanation


    Indices: 2436--2500  Score: 60
    Period size: 18  Copynumber: 3.5  Consensus size: 18

       2426 GATGTCTTCA

                       *        
       2436 TTTAAAAAAACCTTTAAATT
          1 TTTAAAAAAA-ATTTAAA-T

               **             
       2456 TTTTTAAAAAATTTAAAT
          1 TTTAAAAAAAATTTAAAT

                      *        
       2474 TTT-AAAAAATTTTAAAAT
          1 TTTAAAAAAAATTT-AAAT

                     
       2492 TTTAAAAAA
          1 TTTAAAAAA

       2501 TGTATAACTT


Statistics
Matches: 38,  Mismatches: 5, Indels: 5
        0.79            0.10        0.10

Matches are distributed among these distances:
  17    8  0.21
  18   11  0.29
  19   11  0.29
  20    8  0.21

ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43


Consensus pattern (18 bp):   
TTTAAAAAAAATTTAAAT

Found at i:2485 original size:10 final size:10

Alignment explanation


    Indices: 2470--2501  Score: 50
    Period size: 10  Copynumber: 3.4  Consensus size: 10

       2460 TAAAAAATTT

                      
       2470 AAATTTTAAA
          1 AAATTTTAAA

                      
       2480 AAATTTT--A
          1 AAATTTTAAA

                      
       2488 AAATTTTAAA
          1 AAATTTTAAA

                
       2498 AAAT
          1 AAAT

       2502 GTATAACTTT


Statistics
Matches: 20,  Mismatches: 0, Indels: 4
        0.83            0.00        0.17

Matches are distributed among these distances:
   8    8  0.40
  10   12  0.60

ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41


Consensus pattern (10 bp):   
AAATTTTAAA

Found at i:2501 original size:18 final size:17

Alignment explanation


    Indices: 2457--2515  Score: 75
    Period size: 18  Copynumber: 3.4  Consensus size: 17

       2447 CTTTAAATTT

                             
       2457 TTTTAAAAAA-TTTAAA
          1 TTTTAAAAAATTTTAAA

                              
       2473 TTTTAAAAAATTTTAAAA
          1 TTTTAAAAAATTTT-AAA

                         *   *
       2491 TTTTAAAAAATGTATAAC
          1 TTTTAAAAAAT-TTTAAA

                   
       2509 TTTTAAA
          1 TTTTAAA

       2516 GATGTTTTAA


Statistics
Matches: 38,  Mismatches: 2, Indels: 4
        0.86            0.05        0.09

Matches are distributed among these distances:
  16   10  0.26
  17    3  0.08
  18   23  0.61
  19    2  0.05

ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44


Consensus pattern (17 bp):   
TTTTAAAAAATTTTAAA
Done.