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  • niazi84@hotmail.com
    Member
    • Jan 2010
    • 25

    #1

    Steps to Genome Assembly??

    Hello,
    I am a newbie to genome assembling. Can anybody help me knowing because i am gone mad after reading about assembly and alignment in articles but couldn't get anything out. My main questions related to this are:

    What is difference between assemblers and aligners?
    When alignment is done in assembling?
    What is the difference between contigs and consensus sequence?

    In simple words what are the working steps/flow of genome assembling? Thanks in advance
    ~Adnan~
  • tata
    Junior Member
    • Dec 2009
    • 2

    #2
    I think this should answer some of your questions:


    Also,
    (from wikipedia):
    ...a sequence alignment is a way of arranging the sequences of DNA, RNA, or Protein to identify regions of similarity ... between the sequences.

    Sequence alignment is also a part of genome assembly, where sequences are aligned to find overlap so that contigs (long stretches of sequence) can be formed.

    hope it helps

    Comment

    • niazi84@hotmail.com
      Member
      • Jan 2010
      • 25

      #3
      Thans tata,

      its good reference. I used Maq for assembly today and got the consensus sequence finally in .cns file. Now what should be done next to refine the sequence and which tools, any idea?
      Thanks
      ~Adnan~

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