gaps in mutialign

mimi9 mimi9mi9 at
Mon Mar 25 04:39:53 EST 2002

I am aligning several protein sequences with clustalx. Some gaps
appear in the result. In order to keep the conserved amino acid(I know
this from previous papers) is same in deferent sequences, I have to
add new gaps into the sequence. But where should I insert it? Could I
insert gaps into Helixs or sheets? Shoud I consider the second
structure? May you give me some suggestion?


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