While installing JDK you will have a copy of JRE installed automatically. You need not install a copy of JRE separately. yet this will be your directory structure.
The copy of JRE in the JDK folder is for the is a private copy of JRE.
Installing the JDK installs a private Java SE Runtime Environment (JRE) and optionally a public copy. The private JRE is required to run the tools included with the JDK. It has no registry settings and is contained entirely in a jre directory (typically at C:\Program Files\jdk1.6.0\jre) whose location is known only to the JDK. On the other hand, the public JRE can be used by other Java applications, is contained outside the JDK (typically at C:\Program Files\Java\jre1.6.0), is registered with the Windows registry (at HKEY_LOCAL_MACHINE\SOFTWARE\JavaSoft), can be removed using Add/Remove Programs, might or might not be registered with browsers, and might or might not have java.exe copied to the Windows system directory (making it the default system Java platform or not)."