NCBI BLAST output format

Bill Kupiec kupiec at mail1.ciwemb.edu
Fri Jan 7 08:57:26 EST 1994

                                                              Time:8:32 AM
Subject:     RE>NCBI BLAST output format: Q                   Date:1/7/94
> : > Can someone tell me what is the best software for viewing the
> : > output from an NCBI BLAST search?  Whether I read the output in
> : > my UNIX e-mail, my Mac e-mail, or convert it to a text editor
> : > (MS-Word) document, the alignments do not line up without
> : > messing with them.
> : In your text editor (MS-Word, WordPerfect), change the font to a
> : typeface such as Courier or Monaco and the alignments should line up 
> : perfectly.
> 	It's not just the alignments but also the histogram and other
> output.  And it still looks bad even in courier font.
> 	I should have mentioned that I was using courier font.  It
> still does not line up.  And when I start pushing a line over by
> adding spaces at the left edge, not all characters on the line
> move together.  A few just to the right of the cursor shift, then
> the rest of the line might jump over by five spaces as the next space
> is added, while those characters just to the right of the cursor only
> move by the expected one space.  To me it looks like some of the
> spacing is done with TABs.  This would cause such behavior.
> 	Apparently, I am the only one having such difficulties,
> so it must be specific to the Mac and MS-Word text editor I am
> using.

It's not a Mac MS-Word specific problem.  We use Mac MS-Word (and Mac
WordPerfect) to format search results and haven't seen this problem.  From our
experience here, BLAST results are formatted with spaces not tabs and changing
the font will line up both the alignments and histograms.

Bill Kupiec
kupiec at mail1.ciwemb.edu, AppleLink: KUPIEC
Operations Manager, Carnegie Institution of Washington

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