Re^2: how to construct multiple sequence alignment from group of pairwise alignments

Sorry for more biological description. I have updated with very short input and output information. There are many multiple sequence alignments programs, but they all consider sequence similarity (based on physico-chemical). I mainly interested in inserting "dashes".

Comment on Re^2: how to construct multiple sequence alignment from group of pairwise alignments

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Re^3: how to construct multiple sequence alignment from group of pairwise alignments by BrowserUk (Patriarch) on Oct 19, 2010 at 18:48 UTC
Are you saying you have (are given) the pairwise alignments (as strings with dashes) and all you need to produce is the "Final Multiple sequence alignment"? Also, it there a typo? `............V Ref1: CGACAAT--GCACGACAGAGGAAGCAGAACAGATATTTAGATTGCCTCTCATTTTCTCTCCC Seq1: CGACAAAAAGCACGACAGAGGAAGCAGAACAGATA-----ATTGCCTCTCATTTTC-CTCCC ............^` [download] Examine what is said, not who speaks -- Silence betokens consent -- Love the truth but pardon error. "Science is about questioning the status quo. Questioning authority". In the absence of evidence, opinion is indistinguishable from prejudice. RIP an inspiration; A true Folk's Guy	[reply] [d/l]
Re^4: how to construct multiple sequence alignment from group of pairwise alignments by gudluck (Novice) on Oct 19, 2010 at 21:09 UTC
yes need to generate MSA from the set of pairwise alignment. Thanks for informing the typo. Any how I am not looking similarity/identity of the nuceotides at various positions.	[reply]