Question: sense versus antisense (plus or minus) sequence alignment
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19 days ago by
a.alsayed.phd0 wrote:

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

ADD COMMENTlink modified 13 days ago • written 19 days ago by a.alsayed.phd0

What are exactly "parts of virus genome"? RNAseq reads? An assembled virus transcriptome? Could you provide more details?

ADD REPLYlink written 16 days ago by h.mon8.7k

DNA seqs reads - sanger sequencing of PCR products

viral capsid regions (VPs) of human rhinoviruses

ADD REPLYlink written 13 days ago by a.alsayed.phd0

All sequence aligners check both orientations when doing alignments.

ADD REPLYlink written 13 days ago by genomax33k
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