Код для задания 1

name = input()#Bacillus subtilis, Peptoclostridium acidaminophilum,Ureaplasma parvum
pseudo = input()
dict_C = {}
with open(name + ".txt", mode="r") as file:
    lines = file.readlines()
    for j in range(len(lines)):
        if lines[j][0] == ">" :
            if pseudo == "yes" and lines[j].find("pseudo=true") != -1 or pseudo == "no" and lines[j].find("pseudo=true") == -1:
                codon = lines[j+1][0:3]
                if codon in dict_C:
                    dict_C[codon] += 1
                else:
                    dict_C[codon] = 1
for key in dict_C.keys():
    print(key, dict_C[key], sep="\t")

ФП. Практикум 14.