import csv

fasta = "RefSeq_pouf_2.txt"

listinput = []

with open(fasta, 'r') as myfile:
    for row in myfile:
        if "Contig" in row:
            listinput.append(row)

list2 = []

for row in listinput:
    info = row[:-2]
    list2.append(info)
    

namedict = {}

for row in list2:
    place = row.find(',')
    key = row[1:place]
    newname = row[place+1:]
    newnamenew = newname.replace(' ','_')
    place2 = key.find('_')
    addition = key[:place2+1]
    newnamenew2 = addition + newnamenew
    
    if namedict.get(key, 'N/A') != 'N/A':
        print key, "is already in the dict"
    namedict[key] = newnamenew2

with open ('POUFreference.csv', 'w') as myportal:
    filewriter = csv.writer(myportal)
    
    for key in namedict:
        row = key, namedict[key]
        filewriter.writerow(row)