[Biopython-dev] [Bug 2408] New: GenBank records do not contain U's

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Wed Nov 21 18:20:38 UTC 2007


           Summary: GenBank records do not contain U's
           Product: Biopython
           Version: 1.43
          Platform: PC
        OS/Version: Linux
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Main Distribution
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: marcin.cieslik at gmail.com

The GenBank GenBank.FeatureParser() assigns a wrong alphabet for ss-RNA

all GenBank records use T's not U's:

parsing of:

results in:
u'511859': SeqRecord(seq=Seq('CAC  <<CUT>>  TGG', IUPACAmbiguousRNA()),
id='M23021.1', name='MSBMVCCG', description='Southern cowpea mosaic virus,
complete genome.', dbxrefs=[])}

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