$ perl bio_2.pl sequence.fa
Found ATG at 16
Found ATG at 50
Found ATG at 133
Found ATG at 232
Found ATG at 252
Found ATG at 287
Found ATG at 305
Found ATG at 363
Found ATG at 394
Found ATG at 489
Found ATG at 575
Found ATG at 651
Found ATG at 689
Found ATG at 724
Found ATG at 854
Found ATG at 859
Found ATG at 954
Found ATG at 1014
Found ATG at 1044
Found ATG at 1051
Found ATG at 1145
Found ATG at 1228
Found ATG at 1249
Found ATG at 1272
tinyos@tinyOS:~/Monks$ cat sequence.fa | grep -b -o ATG
16:ATG
50:ATG
133:ATG
232:ATG
252:ATG
287:ATG
305:ATG
363:ATG
394:ATG
489:ATG
575:ATG
651:ATG
689:ATG
724:ATG
854:ATG
859:ATG
954:ATG
1014:ATG
1044:ATG
1051:ATG
1145:ATG
1228:ATG
1249:ATG
1272:ATG