The best replacement for application is program.

The best alternatives to application are rated as following:

★★★★★	program
★★★★	system
★★★	system software
★★★	software
★★	resume
★★	cover letter
★★	service
★★	applet
★	platform
★	web server
★	session
★	app
★	website
★	virtual directory
★	implication
★	applications
★	web site
★	package sccm 2012
★	infrastructure
★	database
★	uses of computer
	petition
	web application
	letter
	tool
	common law application
	windows application
	universal college application
	desktop application
	utility
	operating system
	use of a database application
	module
	widget
	us passport
	dll
	browser
	cache
	widget android
	product
	information system
	user settings
	applets
	java applet
	applicability
	theory
	online application

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Speaking about application, one probably shouldn't forget about notice.

Other search terms related to application and their ratings are:

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application

program

system