In article <4.1.19990223150822.0093bb30 at genetics.uiowa.edu>,
tremby at GENETICS.UIOWA.EDU (Yuri Trembath) wrote:
> Dear all,
>> Sorry to raise a mildly ancient topic for some of these newsgroups, but I'd
> be interested in hearing opinions on any and all sequence alignment
> programs for Windows95/98/NT PCs. I'm looking for something that will read
> ABI sequence files and allow me to do multiple alignments and export
> consensus sequences for BLAST searches. Identification of restriction
> sites, exons, repeats, ORFs, etc. would be bonus. Cost comparisons would
> also be appreciated.
>> Thanks in advance,
>> Yuri Trembath
> University of Iowa
Sequencher from Gene Codes Inc. now has a Windows version.
It is about $2000.
This is by far the best and easiest to use program for analyzing
ABI sequence files to create contigs/consensus sequences.
Its best feature is alignment of the chromatograms so that you
can easily spot the cleanest read for conflicts between overlapping
sequences. It does a very nice job on restriction mapping,
but not so good on ORFs (just looks for ATG and Stop codons)
Stuart M. Brown
NYU Medical Center, 550 First Ave, NY, NY