[EMBOSS] prophet BLOSUM question

[Daniel Barker]

Dear EMBOSS users,

I am new to protein profile searches and am using prophecy and prophet 
for a distant similarity search. I'm trying to use BLOSUM45, but prophet 
is reporting BLOSUM62.

I'm generating profiles using prophecy and the BLOSUM45 matrix, thus:

prophecy -auto -warning -type H -datafile EBLOSUM45 -name 
homologene_1825.aln -outfile homologene_1825.prophecy

This seems fine.

I'm using the profiles to search a protein database, thus:

prophet -auto -warning -infile homologene_1825.prophecy -outfile 
prophet_out.txt -sequence 
NC_000909_Methanocaldococcus_jannaschii_DSM_2661_prots.fasta

I am puzzled by this line I get in my prophet output (prophet_out.txt in 
this case):

# Matrix: EBLOSUM62

I can't seem to make it go away. The profile file itself 
(homologene_1825.prophecy) does correctly report BLOSUM45:

Matrix          EBLOSUM45

Is there any way to make prophet also use BLOSUM45? (Does it in fact 
make any difference to prophet?)

Thank you very much for advice.

Best regards,

Daniel

-- 
Daniel Barker
http://bio.st-andrews.ac.uk/staff/db60.htm
The University of St Andrews is a charity registered in Scotland :
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