Align to inserted sequence
We have some RNA from knock-in mice, there are two different sequences we're looking for. What is the best way to check for their presence? Should I just turn them into a sequence and use them as the reference genome for STAR or something to align to? Is there a way I can easily incorporate it into the existing genome? Should I just BLAST using something like magicblast?
Any advice would be appreciated.
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Sethzard •
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