MantisBT - MEGA
An example data containing alignments of four DNA sequences is attached.
The result is:
No. Bootstrap Running time(s)
None 0.046
50 2.578
100 5.114
200 10.179
500 25.374
Data: see attached file
MAO: see below
=========== infer_NJ_nucleotide.mao =============
; Please do not edit this file! If this file is modified, results are unpredictable.
; Instead of modifying this file, simply create a new MEGA Analysis Options file by using the MEGA Prototyper.
[ MEGAinfo ]
ver = 7160929-x86_64 Linux
[ DataSettings ]
datatype = snNucleotide
containsCodingNuc = False
MissingBaseSymbol = ?
IdenticalBaseSymbol = .
GapSymbol = -
[ ProcessTypes ]
ppInfer = true
ppNJ = true
[ AnalysisSettings ]
Analysis = Phylogeny Reconstruction
Scope = All Selected Taxa
Statistical Method = Neighbor-joining
Phylogeny Test = Not Applicable
Test of Phylogeny = Bootstrap method
No. of Bootstrap Replications = 500
Substitution Model = ====================
Substitutions Type = Nucleotide
Model/Method = Jukes-Cantor model
Substitutions to Include = All
Rates and Patterns = ====================
Rates among Sites = Uniform Rates
Gamma Parameter = Not Applicable
Pattern among Lineages = Same (Homogeneous)
Data Subset to Use = ====================
Gaps/Missing Data Treatment = Pairwise deletion
Site Coverage Cutoff (%) = Not Applicable
Has Time Limit = False
Maximum Execution Time = -1
Running command:
megacc -a infer_NJ_nucleotide.mao -d all.fasta -o all.nwk
all.fasta (5,760) 2017-04-25 02:41https://megasoftware.net/mantis_bt/