import sys

'''parses out bowtie map file'''

map_file = open(sys.argv[1],'r')
out_file = open(sys.argv[2], 'w')
THRESHOLD = 1000
K = 33

for line in map_file:
    data = line.rstrip().split('\t')
    contig_length = int(data[4].split('_')[3])+K-1
    read, contig = data[0], data[4]
    if contig_length >= 1000:
        print >>out_file, line.rstrip()