Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009194.1 Kokia drynarioides strain JFW-HI SEQ_123899, 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: 3599
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35


Found at i:321 original size:44 final size:44

Alignment explanation


    Indices: 271--358  Score: 167
    Period size: 44  Copynumber: 2.0  Consensus size: 44

        261 TTGAGTAAAA

                                                        
        271 ACCCAGAAACAGACACAGCTTTTGGTTAGTCTTAAAATGGCGTC
          1 ACCCAGAAACAGACACAGCTTTTGGTTAGTCTTAAAATGGCGTC

                                       *                
        315 ACCCAGAAACAGACACAGCTTTTGGTTGGTCTTAAAATGGCGTC
          1 ACCCAGAAACAGACACAGCTTTTGGTTAGTCTTAAAATGGCGTC

        359 GTAGTATCAA


Statistics
Matches: 43,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  44   43  1.00

ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25


Consensus pattern (44 bp):   
ACCCAGAAACAGACACAGCTTTTGGTTAGTCTTAAAATGGCGTC

Found at i:802 original size:17 final size:17

Alignment explanation


    Indices: 767--801  Score: 54
    Period size: 16  Copynumber: 2.1  Consensus size: 17

        757 CCTTAATTCA

                             
        767 TTATAGTTTTTAAAATT
          1 TTATAGTTTTTAAAATT

                       *     
        784 TTATA-TTTTTTAAATT
          1 TTATAGTTTTTAAAATT

              
        800 TT
          1 TT

        802 TTAAAATTAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  16   12  0.71
  17    5  0.29

ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66


Consensus pattern (17 bp):   
TTATAGTTTTTAAAATT
Done.