In article <tbu-2206982003370001 at tburmei.dialup.fu-berlin.de>, tbu at gmx.net
(Thomas Burmeister) wrote:
> Dear Newsgroup-readers & GCG-users!
> I want to align sequences, appr. 10-15 kB in length. As I understand it,
> the GCG program PILEUP only supports alignments of sequences <= 7 kB. Is
> there a possibility to circumvent this restriction? Or are there
> (freeware/shareware) multiple alignment programs, that can do this,
> available somewhere?
Pileup, as shipped, is limited to aligned sequences of 7,000 characters,
this includes the gaps in the aligned sequence. If you have the source
code it might be possible to increase this upper limit.
As an alternative you could try CLUSTALW (or the graphical version
CLUSTALX), however the larger the comparison the surface the longer the
alignment takes.
--
Michael Mitchell "Smoke me a kipper,
User Support I'll be back for breakfast."
Molecular Biology Software Ace Rimmer, Test Pilot
+44 (0)171 269 3115 BBC-TV Red Dwarf ENFJ
