sense versus antisense (plus or minus) sequence alignment
Please, if I have a couple of query (parts of virus genome) sequences and a couple of references sequences, what are the steps required to align them correctly;i.e, to ensure that I alighn sense with sense etc. (the same direction)?
Many Thanks
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DNA seqs reads - sanger sequencing of PCR products
viral capsid regions (VPs) of human rhinoviruses
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What are exactly "parts of virus genome"? RNAseq reads? An assembled virus transcriptome? Could you provide more details?
DNA seqs reads - sanger sequencing of PCR products
viral capsid regions (VPs) of human rhinoviruses
All sequence aligners check both orientations when doing alignments.