nomnom.py

#!/usr/bin/env python
# -*- coding: utf-8 -*-

import re
RE_SPLIT = re.compile(r'\W+')
file_obj = open('/junk/in')

def parse_file(file_obj,re_split):
    for line in file_obj:
        yield re.split(re_split,line)[1:-1]

for l in parse_file(file_obj,RE_SPLIT):
    print l

'''
1: sp|Q8GBW6|12S_PROFR        100       8       5       6       7       9       6       5
2: sp|P93343|1433C_TOBAC        8     100       5       9       7       4       6       8
3: sp|P18485|1A12_SOLLC         5       5     100       5       5       8       5       8
4: sp|P37821|1A1C_MALDO         6       9       5     100       6       9       7       6
5: sp|Q00740|1A1D_PSEUD         7       7       5       6     100       6      25      10
6: sp|O57809|1A1D_PYRHO         9       4       8       9       6     100       8       6
7: sp|Q7M523|1A1D_CYBSA         6       6       5       7      25       8     100       7
8: sp|Q96QU6|1A1L1_HUMAN        5       8       8       6      10       6       7     100
'''