Check out the ibdata1 file and its ilk.
From the documentation:
"Two important disk-based resources managed by the InnoDB storage engine are its tablespace data files and its log files. If you specify no InnoDB configuration options, MySQL creates an auto-extending 10MB data file named ibdata1 and two 5MB log files named ib_logfile0 and ib_logfile1 in the MySQL data directory. To get good performance, you should explicitly provide InnoDB parameters as discussed in the following examples. Naturally, you should edit the settings to suit your hardware and requirements."
