Hi, These errors are due to the non standard amino acid pyrrolysine O. I've been getting them for a couple months. I am not sure whether this was fixed in the later versions of EMBOSS, we are still on v4 as well. Best regards, Isabelle
-----Original Message----- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of simon andrews (BI) Sent: Monday, September 08, 2008 09:35 To: [EMAIL PROTECTED] Subject: [EMBOSS] Illegal character warnings in uniprot Our regular update of uniprot threw up some warnings when we updated over the weekend. It's not clear from the error which line in the entry is problematic, but it doesn't seem to have caused any major problems and I can still retrieve and query the sequences from the indices created. We're still on EMBOSS v4 (I know I should update - but it works for what we use it for!). Is this something which is fixed in later versions or is it something new in uniprot itself? I'll paste in a couple of the 174 warnings I got. Cheers Simon. [formatdb] WARNING: Sequence number 176991 (lcl|MTBB1_METBF), 1 illegal character was removed: 1 - [formatdb] WARNING: Sequence number 176992 (lcl|MTBB1_METMA), 1 illegal character was removed: 1 - [formatdb] WARNING: Sequence number 176993 (lcl|MTBB2_METAC), 1 illegal character was removed: 1 - _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
