Spike Wuhan is here

Use the BioPython Bio.pairwise2 program here

Yours sequence is the reference, the shorter Wuhan query is the query. The genomic positions position1 and position2 will then be defined via the output of pairwise2, then cut it by using the genomic position -1 as follows:

spike = completegenome[int(position1)-1:int(position2)-1]

-1 is needed because lists start at 0 rather than 1.

Spike Wuhan is here

Using Python then use the BioPython Bio.pairwise2 program here

Yours sequence is the reference, the shorter Wuhan query is the query. The genomic positions position1 and position2 will then be defined via the output of pairwise2, then cut it by using the genomic position -1 as follows:

spike = completegenome[int(position1)-1:int(position2)-1]

-1 is needed because lists start at 0 rather than 1.