Unconfigured Ad

Collapse
X
Collapse
 
  • Page of 1
  • Filter
  • Time
  • Show
Clear All
new posts
Previous template Next
  • marco12345
    Member
    • Mar 2013
    • 19
    #1

    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.

    Marco
    Tags: alignement, clustal, clustalw, time
  • chuanchao
    Junior Member
    • Aug 2013
    • 3
    #2
    why not use mega?

    Comment

    • rhinoceros
      Senior Member
      • Apr 2013
      • 372
      #3
      No, but I'd use muscle instead of clustal..
      savetherhino.org

      Comment

      • jimmybee
        Senior Member
        • Sep 2010
        • 119
        #4
        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

        Comment

        Previous template Next

        Latest Articles

        Collapse
        • SEQadmin2
          Nine Things a Sample Prep Scientist Thinks About Before Sequencing
          by SEQadmin2


          I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.

          Here are nine questions we think about, in roughly the order they matter, before...
          06-18-2026, 07:11 AM
        • SEQadmin2
          From Collection to Sequencing: Why Sample Preparation and Preservation Define Sequencing Data
          by SEQadmin2


          Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.

          The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
          ...
          06-02-2026, 10:05 AM
        View All

        ad_right_rmr

        Collapse

        News

        Collapse
        Topics Statistics Last Post
        Whole-Genome Sequencing Traces Faroe Islands Ancestry to a North Atlantic Founder Population by SEQadmin2
        Started by SEQadmin2, 06-17-2026, 06:09 AM
        0 responses
        40 views
        0 reactions
        		 Last Post SEQadmin2
        by SEQadmin2
        06-17-2026, 06:09 AM  
        Sequencing the Two-Toed Sloth Genome Reveals Jumping Genes Tied to Its Extreme Metabolism by SEQadmin2
        Started by SEQadmin2, 06-09-2026, 11:58 AM
        0 responses
        102 views
        0 reactions
        		 Last Post SEQadmin2
        by SEQadmin2
        06-09-2026, 11:58 AM  
        A New Method Makes Hantavirus Genome Analysis Faster and More Accessible by SEQadmin2
        Started by SEQadmin2, 06-05-2026, 10:09 AM
        0 responses
        123 views
        0 reactions
        		 Last Post SEQadmin2
        by SEQadmin2
        06-05-2026, 10:09 AM  
        A New Single-Cell Method Maps DNA-Protein Interactions by SEQadmin2
        Started by SEQadmin2, 06-04-2026, 08:59 AM
        0 responses
        114 views
        0 reactions
        		 Last Post SEQadmin2
        by SEQadmin2
        06-04-2026, 08:59 AM  
        View All
        Working...