Yes, indeed. 

Thanks for the Wu-blast tip. 

a

On Mon, 2008-11-17 at 12:36 -0600, Chris Fields wrote:

> I agree completely with everything Jason says.  Not to mention this is  
> also very similar to a filed bug, which I have no clue on how to fix:
> 
> http://bugzilla.open-bio.org/show_bug.cgi?id=2476
> 
> chris
> 
> On Nov 17, 2008, at 12:16 PM, Jason Stajich wrote:
> 
> > Personally - I'm not sure I trust tile_hsps on a translated search -  
> > or at all - really - you may want to compute the "dominant" strand  
> > yourself by iterating through the HSPs or using WU-BLAST to get  
> > logical groups of HSPs which is a better tiling HSP algorithm (the -- 
> > links option in WU-BLAST).