I have debugged the error it is due giving the input stings primer_record.primer_processed_seq as 5'-AGGCTCTCCCAAAGGTCCCGCCAGCAG-3' I have to trim them to AGGCTCTCCCAAAGGTCCCGCCAGCAG to satisfy the condition.Niphold thanks for your suggestions :)
On Sun, Oct 28, 2012 at 3:40 PM, praveen krishna <[email protected] > wrote: > record.processed_seq and record.reverse_seq are strings of length around > 10,000 to 20,000 > and primer_record.primer_processed_seq is also string of length around 10 > to 20 > This function will extract all the substrings > 'primer_record.primer_processed_seq' present in record.processed_seq > and record.reverse_seq > > examples: > primer_record.primer_processed_seq : > 5'-AGGCTCTCCCAAAGGTCCCGCCAGCAG-3' > record.processed_seq > : > 5'-GCGCAACGCAATTAATGTGAGTTACCTCACTCATTAGGCACCCCAGGCTTTACACTTTATGCTTCCGGCTCCTATGTTG...........................................-3' > > On Sun, Oct 28, 2012 at 3:33 PM, Niphlod <[email protected]> wrote: > >> maybe a bit more details about the records you're trying to compare would >> actually help. >> Seems that you're trying to see if primer_record.primer_processed_seq is >> in either record.processed_seq or record.reverse_seq. >> >> what are primer_record.primer_processed_seq , record.processed_seq and >> record.reverse_seq ? (strings, integers, list, etc... ???) >> >> >> >> -- >> >> >> >> > > --
