MAFFT
界面
将序列放入MAFFT.bat相同的文件夹中，双击MAFFT.bat
Active code page: 65001
Preparing environment to run MAFFT on Windows.
This may take a while, if real-time scanning by anti-virus software is on.
It may take a while before the calculation starts
if being scanned by anti-virus software.
Also consider using a faster version for Windows 10:
https://mafft.cbrc.jp/alignment/software/wsl.html
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MAFFT v7.450 (2019/Aug/23)
MBE 30:772-780 (2013), NAR 30:3059-3066 (2002)
https://mafft.cbrc.jp/alignment/software/
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Input file? (FASTA format; Folder="C:\mafft-7.450-win64-signed\mafft-win")
@
参数
@后输入文件名称，如example.fas
Output file? @
@后输入输出名称，一般喜欢加个out，此处键入exampleout.fas
Output format?1. Clustal format / Sorted 2. Clustal format / Input order 3. Fasta format / Sorted 4. Fasta format / Input order 5. Phylip format / Sorted 6. Phylip format / Input order@
选择4
Strategy?1. --auto 2. FFT-NS-1 (fast) 3. FFT-NS-2 (default) 4. G-INS-i (accurate) 5. L-INS-i (accurate) 6. E-INS-i (accurate)@
选择1
Additional arguments? (--ep ## --op ## --kappa ## etc) @
直接Enter
command="/usr/bin/mafft" --auto --inputorder "16S.fas" > "16Sout.fas" OK?
@ [Y]
继续Enter，等待结果，到根目录找到example.fas即可