Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008492.1 Kokia drynarioides strain JFW-HI SEQ_123167, 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: 7022
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34


Found at i:4280 original size:56 final size:56

Alignment explanation


    Indices: 4194--4306  Score: 226
    Period size: 56  Copynumber: 2.0  Consensus size: 56

       4184 GTCGATCCAT

                                                                    
       4194 TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA
          1 TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA

                                                                    
       4250 TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA
          1 TCTGATTTTGAAAATAGTGACAACGGAGTTGCATTACTACCAAATTCTGACCAATA

             
       4306 T
          1 T

       4307 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:5215 original size:3 final size:3

Alignment explanation


    Indices: 5207--5232  Score: 52
    Period size: 3  Copynumber: 8.7  Consensus size: 3

       5197 TTTGAAATTA

                                              
       5207 TAC TAC TAC TAC TAC TAC TAC TAC TA
          1 TAC TAC TAC TAC TAC TAC TAC TAC TA

       5233 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:5874 original size:22 final size:22

Alignment explanation


    Indices: 5831--5876  Score: 67
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       5821 TGTAATGATT

                                   
       5831 ATGAAACGACACGGCGAGAGGTG
          1 ATGAAACGA-ACGGCGAGAGGTG

                                   
       5854 ATGAAACG-ACGGCAGAGAGGTG
          1 ATGAAACGAACGGC-GAGAGGTG

             
       5876 A
          1 A

       5877 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.