Question: How to find out the mismatch position from MUSCLE or CLUSTALW output?
0
gravatar for mbk0asis
4.4 years ago by
mbk0asis530
Korea, Republic Of
mbk0asis530 wrote:

Hello, everyone!

I'm trying to find out the positions of SNP between human and orangutan mRNAs.

I ran MUSCLE mRNAs from the two species and obtained clustal-like output.

All I need is finding the position of SNP. I've been looking for tools for more than a week, but none of them seemed working in my case. Mostly because my lack of computer skills(?) like coding, compiling and so on.

If anyone knows such tools, please let me know!

 

Thank you

mismatch finding muscle • 1.7k views
ADD COMMENTlink modified 4.2 years ago by h.mon29k • written 4.4 years ago by mbk0asis530

Are you looking for an alignment viewer to visually find differences, or a command-line tool/script to print out indel positions?

ADD REPLYlink written 4.4 years ago by SES8.3k
A command line tool that can print out snp positions would be great
ADD REPLYlink written 4.4 years ago by mbk0asis530
3
gravatar for h.mon
4.2 years ago by
h.mon29k
Brazil
h.mon29k wrote:

Have a look at SNP-sites.

ADD COMMENTlink written 4.2 years ago by h.mon29k
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