Python pattern matching

Matching a pattern in python

pattern = "F-x-([EK])-x-S-([GT])-R-T"
pattern=pattern.replace("-","")
pattern=pattern.replace("x","[GPAVLIMCFYWHKRQNEDST]")
count=0

for sequence in source:
    count += 1
    sequence=sequence.replace(" ","")
    result = re.finditer(pattern, sequence)
    print(">sequence ",count)
    print(sequence)
    for match in result:
        print("found ",match.group()," at position",match.span()," third position =", match.group(2))

Source: bpc.biobix.be

Similar codes

5 votes221 views2 answers
Python string replace by index
Python
0 vote208 views1 answer
Deactivate pandas warning copy
Python
0 vote226 views1 answer
Modify a list with for loop function in python
Python
1 vote227 views2 answers
Why use python
Python
6 votes189 views2 answers
Numpy from csv
Python
1 vote188 views1 answer
Pytest --clrear cache
Python
2 votes204 views2 answers
Print statements
Python
0 vote206 views1 answer
Tqdm for jupyter notebook
Python
0 vote215 views1 answer
How to return number in binary python
Python
0 vote253 views1 answer
Flask sqlalchemy case insensitive like
Python Flask