clustal alignment

marco12345

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Join Date: Mar 2013

Posts: 19
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#1

clustal alignment

08-30-2013, 03:14 AM

Hi all,

I have to plan a little my work, and I have a question I am not finding answer.
How long could a clustal run be?

That would be using clustalw-2.1, and doing a multiple alignment on 10 fasta sequences of about 150 kb. The type of alignment is "slow/accurate", the ouput a PHYLIP file, and all the options are on default values.
I'm thinking on running it on a MacBook 3.1 with 4 Gb of RAM.

What do you think? Would that be too much for a laptop?

Thanks in advance.

Marco
Tags: alignement, clustal, clustalw, time
chuanchao

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Join Date: Aug 2013

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#2

08-30-2013, 10:11 PM

why not use mega?
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rhinoceros

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Join Date: Apr 2013

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#3

08-31-2013, 04:05 AM

No, but I'd use muscle instead of clustal..

savetherhino.org
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jimmybee

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Join Date: Sep 2010

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#4

09-01-2013, 03:56 PM

From my experience with mitochondrial and chloroplast alignments, Id say less than a week. You could try Clustal-omeg. Im pretty sure its multi-threaded

Your laptop should handle it
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