Fragment assembly question

[J. Logan Black]

Hello

 Are there any fragment assembly programs available for PC other than
netting into GCG somewhere?  Maybe I am dense but GCG is awkward 
and I would like to find a better way.  When  assembling a big project GCG is
 too difficult to use.  Also what is the best protein software available for PC. 
 I need to convert DNA/RNA to protein and analyze the protein for MW and
 other characteristics.

Thanks.

Logan