Quote above from your notes.
You mentioned that the Chicago Sequence "has mixed signals at multiple positions, including orf 8 mutation, signalling dual infections and more recombination".
So are you saying: The CDC claims no mutations in US sequences in the face of evidence that both have mutation in orf 8?
I don't know what I'm looking at, but it is interesting to copy and paste the sequences into text-compare.com to see the highlighted differences between the sequences. Provides more grist for the Google mill.