Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006817.1 Kokia drynarioides strain JFW-HI SEQ_121416, 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: 6912
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34


Found at i:3851 original size:56 final size:56

Alignment explanation


    Indices: 3765--3877  Score: 226
    Period size: 56  Copynumber: 2.0  Consensus size: 56

       3755 GTCGATCCAT

                                                                    
       3765 TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA
          1 TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA

                                                                    
       3821 TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA
          1 TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA

             
       3877 T
          1 T

       3878 TTCAATATTT


Statistics
Matches: 57,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  56   57  1.00

ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31


Consensus pattern (56 bp):   
TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA

Found at i:4786 original size:3 final size:3

Alignment explanation


    Indices: 4778--4803  Score: 52
    Period size: 3  Copynumber: 8.7  Consensus size: 3

       4768 TTTGAAATTA

                                              
       4778 TAC TAC TAC TAC TAC TAC TAC TAC TA
          1 TAC TAC TAC TAC TAC TAC TAC TAC TA

       4804 AAAAAAAAAA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   23  1.00

ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35


Consensus pattern (3 bp):   
TAC

Found at i:5445 original size:22 final size:22

Alignment explanation


    Indices: 5402--5447  Score: 67
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       5392 TGTAATGATT

                                   
       5402 ATGAAACGACACGGCGAGAGGTG
          1 ATGAAACGA-ACGGCGAGAGGTG

                                   
       5425 ATGAAACG-ACGGCAGAGAGGTG
          1 ATGAAACGAACGGC-GAGAGGTG

             
       5447 A
          1 A

       5448 AGAGGAAGTG


Statistics
Matches: 22,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  21    5  0.23
  22    9  0.41
  23    8  0.36

ACGTcount: A:0.37, C:0.15, G:0.39, T:0.09


Consensus pattern (22 bp):   
ATGAAACGAACGGCGAGAGGTG
Done.