...
/etc/init.d/web (file - web start/stop script)
/etc/profile.d (various files for establishing envronment variables)
java_home.sh
sash_home.sh
alf_home.sh
/home
/db
/mysql (MySQL database and related components)
/logs (application and server logs to give non-sysadmins secure access to log data): All application-specific logs go here, in files named <appname>.log
/repos (AlFresco or other CMS or file-store repositories)
/www
/apache
/etc (application certificates and configurations for www server applications)
/openssl
/tomcat
/usr/local/jdk
...