How many disks do you have? Where are the windows partitions
located ? Without these questions answered it's hard to give you an exact answer but the lilo.conf file _might_ look something along these lines:
The result of fdisk -l /dev/hda
device System OS
/dev/hda1 FAT16 WinME
/dev/hda2 Win95 Ext'd (LBA) ---
/dev/hda5 WIn95 FAT32 Win2000
/dev/hda6 Linux
/dev/hda7 Linux
/dev/hda8 Linux swap
/dev/hda9 WIn95 FAT32 ---