I have 2 lists,
list2, of protein sequences of the same given gene in different strains. In
list1 are reported amino-acid sequences from resistant strains, and in
list2 are reported amino-acid sequences from susceptible strains. Each item of each list is an amino-acid sequence.
I want to filter out (in Python 3) from
list1 all of the variants that are also present in
list2. The final aim is to have a list of the sequences that have unique mutations that are not in the 2nd list. The mutations can be of any type (e.g., indels, mismatches).
All the sequences are of at least 90% identity to some reference sequence (filtered out the low matches using seq alignment).
Any enlightenment / package / tool for this job will be appreciated!
c : amino-acids
For this input:
- Reference seq:
- Resistant strains:
list1= [aacbbc, ababbb]
- Susceptible strains:
list2= [aacbbb, aaabbc]
The expected output would be: [ababbb], since the mutations in
list2 cancels out the item aacbbc.
Of course this is a simple example and it is possible to have more complex scenarios (e.g., longer indels and mismatches).