Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009970.1 Kokia drynarioides strain JFW-HI SEQ_124719, 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: 6330
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.34

Warning! 150 characters in sequence are not A, C, G, or T


Found at i:979 original size:21 final size:20

Alignment explanation


    Indices: 880--967  Score: 87
    Period size: 21  Copynumber: 4.5  Consensus size: 20

        870 AAAATTATTT

                                
        880 AATAATTTTATATTT-AAAA
          1 AATAATTTTATATTTAAAAA

                  * *           *
        899 AATAATATAATAATTT----T
          1 AATAATTTTAT-ATTTAAAAA

                                 
        916 AATAATTTTATATTTCAAAAA
          1 AATAATTTTATATTT-AAAAA

                                 
        937 AATAATTTTATATTTCAAAAA
          1 AATAATTTTATATTT-AAAAA

                      
        958 AATAATTTTA
          1 AATAATTTTA

        968 ATAGTTTTAA


Statistics
Matches: 57,  Mismatches: 6, Indels: 10
        0.78            0.08        0.14

Matches are distributed among these distances:
  16    4  0.07
  17    9  0.16
  19    9  0.16
  20    4  0.07
  21   31  0.54

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


Consensus pattern (20 bp):   
AATAATTTTATATTTAAAAA

Found at i:979 original size:22 final size:21

Alignment explanation


    Indices: 916--967  Score: 104
    Period size: 21  Copynumber: 2.5  Consensus size: 21

        906 TAATAATTTT

                                 
        916 AATAATTTTATATTTCAAAAA
          1 AATAATTTTATATTTCAAAAA

                                 
        937 AATAATTTTATATTTCAAAAA
          1 AATAATTTTATATTTCAAAAA

                      
        958 AATAATTTTA
          1 AATAATTTTA

        968 ATAGTTTTAA


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

Matches are distributed among these distances:
  21   31  1.00

ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44


Consensus pattern (21 bp):   
AATAATTTTATATTTCAAAAA

Found at i:1519 original size:36 final size:38

Alignment explanation


    Indices: 1472--1556  Score: 122
    Period size: 36  Copynumber: 2.3  Consensus size: 38

       1462 NNNNNNNNNN

                                                  
       1472 TTTTAATAATTTTATATTT-AAAAAATAA-TATAATAA
          1 TTTTAATAATTTTATATTTAAAAAAATAATTATAATAA

                                            *     *
       1508 TTTTAATAATTTTATATTTCAAAAAAATAATTTTAATAG
          1 TTTTAATAATTTTATATTT-AAAAAAATAATTATAATAA

                       
       1547 TTTTAA-AATT
          1 TTTTAATAATT

       1557 ATTTGCTAAC


Statistics
Matches: 44,  Mismatches: 2, Indels: 4
        0.88            0.04        0.08

Matches are distributed among these distances:
  36   19  0.43
  38   13  0.30
  39   12  0.27

ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49


Consensus pattern (38 bp):   
TTTTAATAATTTTATATTTAAAAAAATAATTATAATAA

Found at i:4412 original size:14 final size:14

Alignment explanation


    Indices: 4395--4423  Score: 58
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       4385 TATGAAGAAT

                          
       4395 ATTAATATTAAATA
          1 ATTAATATTAAATA

                          
       4409 ATTAATATTAAATA
          1 ATTAATATTAAATA

             
       4423 A
          1 A

       4424 ATACAATTGT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   15  1.00

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


Consensus pattern (14 bp):   
ATTAATATTAAATA
Done.