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Old 08-30-2013, 03:14 AM   #1
Location: barcelona

Join Date: Mar 2013
Posts: 18
Default clustal alignment

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.

marco12345 is offline   Reply With Quote
Old 08-30-2013, 10:11 PM   #2
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Location: Shanghai

Join Date: Aug 2013
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why not use mega?
chuanchao is offline   Reply With Quote
Old 08-31-2013, 04:05 AM   #3
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Location: sub-surface moon base

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Posts: 372

No, but I'd use muscle instead of clustal..
rhinoceros is offline   Reply With Quote
Old 09-01-2013, 03:56 PM   #4
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Location: Adelaide, Australia

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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
jimmybee is offline   Reply With Quote

alignement, clustal, clustalw, time

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