[Jalview-discuss] Missing aligned sequences in image!

[subhendu at UDel.Edu]

Hi,
I am trying to export my sequence alignment (made in clustalW)after making really pretty pictures for publication. However I cannot get the whole alignment in the .eps image file (or in .png file) and it is missing a block of alignment.I tried to have minimum characters in the header of the fasta sequences (before running clustalW),I tried decreasing the font size, I tried changing it from portrait to landscape but to no effect.I wrap everything,get rid of the annotations but nothing works.Its always a one page .eps image with the top-alignmnet-block of first ~50 residues missing everytime.
I really like the figures I made in jalview, but I am really frustrated as I need the whole alignment for publication.

I have a multiple sequence alignment of 11 sequences each of 300 residues.
It would be of immense help if I could get the whole alignment, so that I could put it in the publication.

Thanks



Subhendu Chakraborti
Graduate student 
Bahnson's Group (Structural Enzymology)
Department of Chemistry & Biochemistry
312 Drake Hall, University of Delaware
Newark, DE 19716 USA

Phone-302-831-2096
subhendu at udel.edu