Bottomline (EPAY) 8-K Bottomline Technologies Reports Third Quarter Results

Exhibit 99.1

Bottomline Technologies Reports Third Quarter Results

Growth in Subscriptions & Transactions Revenues and Cloud Acquisition Highlight Third Quarter

PORTSMOUTH, N.H. – May 7, 2012 –Bottomline Technologies (NASDAQ: EPAY), a leading provider of cloud-based payment, invoice and banking solutions, today reported financial results for the third quarter ended March 31, 2012.

Revenues for the third quarter were $55.3 million, an increase of $6.5 million, or 13%, from the third quarter of last year. Subscriptions and transactions revenue increased 51% from the third quarter of last year to $20.4 million.

Gross margin for the third quarter was $29.1 million, an increase of $3.5 million from the third quarter of last year. Net loss for the third quarter was $1.3 million, or net loss per share of $0.04.

Core net income for the third quarter was $7.3 million. Core net income excludes acquisition-related expenses, including amortization of intangible assets, of $4.4 million, restructuring expenses of $0.5 million and equity-based compensation of $3.7 million. Core earnings per share was $0.21.

“We advanced the business strategically and executed operationally during the quarter,” said Rob Eberle, President and CEO of Bottomline Technologies. “Our focus on recurring revenue was evidenced by 51% growth in subscription and transaction revenues. The quarter was highlighted by the acquisition of Intuit’s cloud-based commercial banking business, which accelerates our entry into new adjacent markets and the transition of our banking offerings to cloud-based delivery and revenue models. With this acquisition, we are increasing our focus and investment in innovative cloud-based solutions which provide exceptional value to our customers and compelling economics for Bottomline. Our expanding cloud-based solution set leaves us well positioned to drive long term growth and margin expansion.”

Revenues for the nine months ended March 31, 2012 increased 21% to $162.9 million as compared with $135.1 million in the same period last year. Net income for the nine months ended March 31, 2012 was $2.9 million, or net income per share of $0.08.

Core net income for the nine months ended March 31, 2012 was $25.7 million after excluding acquisition-related expenses of $12.1 million, restructuring expenses of $0.6 million and equity-based compensation of $10.3 million. Core earnings per share was $0.73 for the nine months ended March 31, 2012.

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Third Quarter Customer Highlights

• Chosen by and expanded relationships with eight leading insurance companies and corporations, including Macerich, Terra Insurance Company, Century-National Insurance, National American Insurance Company, Sentry Insurance, West Bend Mutual Insurance, New Jersey Manufacturers Insurance and Infinity Insurance to provide Bottomline’s SaaS-based technology to automate, manage and control their legal spend.

• Leading organizations, including 1-800-Flowers.com, Aldermore Bank PLC, allpay Limited, Barclays Bank PLC, Cigna, Compuware Corporation, Duncan Lawrie Limited, Northern and Shell Media Publications, First Internet Bank of Indiana, GMAC Insurance, Herbalife International of America, ING North America Insurance Corporation, ITV PLC, Marriott International, Philadelphia Insurance Companies, Procter & Gamble, Raytheon, Roma Bank, SuperValu, Thames Water Utilities Limited, TJX Companies and Tower Group, chose Bottomline’s payment automation solutions.

• Selected for SWIFT connectivity and expertise by leading organizations, including E D & F MAN GROUP, Friends Life Limited, Kraft Foods European Business Services Centre, National Grid USA Service Company and Nomura International Plc.

• Deepened relationships in the healthcare vertical with customers including Bon Secours Health System, JFK Health System, Johnson & Johnson, Kingsbrook Jewish Medical Center, Mon-Vale Health Resources, NorthBay Healthcare, Summa Health System Hospitals, Sutter Health, University of Pittsburgh Medical Center and West Virginia University Hospitals.

• Selected by Avery Dennison, Cargill, Cascade Corporation, Crane Co., Gildan Activewear, Hays Specialist Recruitment, Leroy-Somer, Motorola Solutions, Ogilvy CommonHealth, Scholastic, Teichert, Trek Bicycle Corporation and Visteon Corporation to provide transaction document automation solutions.

Third Quarter Strategic Corporate Highlights

• Formed a strategic partnership with Intuit to deliver innovative products and services for businesses to the banking and financial services industry. In connection with the partnership, Bottomline acquired the commercial banking business from Intuit’s Financial Services segment. The transaction allows Bottomline to enter new markets and accelerate the transition of its commercial banking solution set to the cloud.

• Recognized as a ‘World’s Best Treasury & Cash Management Provider’ by Global Finance for the third consecutive year.

• Honored by the Institute of Customer Service as the ‘2012 Quality Service Provider of the Year’.

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Bottomline has presented supplemental non-GAAP financial measures as part of this earnings release. The presentation of this non-GAAP financial information should not be considered in isolation from, or as a substitute for, the financial results presented in accordance with GAAP. Core net income and core earnings per share are non-GAAP financial measures. The non-GAAP financial measures exclude certain items, specifically amortization of intangible assets, impairment losses on equity investments, equity-based compensation, acquisition-related expenses (including acquisition-related earn-outs) and restructuring related costs. Acquisition-related expenses include legal and professional fees and other transaction costs associated with business and asset acquisitions, costs associated with integrating acquired businesses, including transition service agreement costs, and other charges incurred as a direct result of our acquisition and integration efforts. Bottomline believes that these supplemental non-GAAP financial measures are useful to investors because they allow for an evaluation of the company with a focus on the performance of its core operations, including more meaningful comparisons of financial results to historical periods and to the financial results of less acquisitive peer and competitor companies. Bottomline’s executive management team uses these same non-GAAP financial measures internally to assess the ongoing performance of the company. Additionally, the same non-GAAP information is used for planning purposes, including the preparation of operating budgets, and in communications with the board of directors in respect of financial performance. Since this information is not a GAAP measurement of financial performance, there are material limitations to its usefulness on a stand-alone basis, including the lack of comparability of this presentation to the GAAP financial results of other companies. A reconciliation of the GAAP results to the non-GAAP results for the three and nine month periods ended March 31, 2012 and 2011 is as follows:

	Three Months Ended March 31,					Nine Months Ended March 31,
	(in thousands)					(in thousands)
	2012			2011		2012		2011
GAAP net (loss) income	$	(1,332	)	$	1,095	$	2,873	$	5,835
Amortization of intangible assets		3,734			2,786		11,051		8,572
Equity-based compensation		3,719			3,344		10,257		8,766
Acquisition-related expenses		706			822		1,007		1,572
Restructuring expenses		509			693		560		753
Core net income	$	7,336		$	8,740	$	25,748	$	25,498

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About Bottomline Technologies

Bottomline Technologies (NASDAQ: EPAY) provides cloud-based payment, invoice and banking solutions to corporations, financial institutions and banks around the world. The company’s solutions are used to streamline, automate and manage processes involving payments, invoicing, global cash management, supply chain finance and transactional documents. Organizations trust Bottomline to meet their needs for cost reduction, competitive differentiation and optimization of working capital. Headquartered in the United States, Bottomline also maintains offices in Europe and Asia-Pacific. For more information, visit www.bottomline.com.

Bottomline Technologies and the BT logo are trademarks of Bottomline Technologies (de), Inc. which may be registered in certain jurisdictions. All other brand/product names are trademarks of their respective holders.

Cautionary Language

This press release may contain “forward-looking statements” within the meaning of the Private Securities Litigation Reform Act of 1995. Any statements that are not statements of historical fact (including statements containing the words “will”, “believes,” “plans,” “anticipates,” “expects,” “look forward”, “estimates” and similar expressions) should be considered to be forward-looking statements.Actual results may differ materially from those indicated by such forward-looking statements as a result of various important factors. Among the important factors that could cause actual results to differ materially from those indicated by such forward-looking statements are competition, market demand, technological change, strategic relationships, recent acquisitions, international operations and general economic conditions. For additional discussion of factors that could impact Bottomline Technologies’ financial results, refer to the Company’s Form 10-K for the fiscal year ended June 30, 2011 and any subsequently filed Form 10-Q’s and Form 8-K’s or amendments thereto. Any forward-looking statements represent our views only as of today and should not be relied upon as representing our views as of any subsequent date. We do not assume any obligation to update any forward-looking statements.

Media Contact:

Kevin Donovan

Bottomline Technologies

603-501-5240

kdonovan@bottomline.com

Bottomline Technologies

Unaudited Condensed Consolidated Statements of Operations

(in thousands, except per share amounts)

	Three Months Ended March 31,
	2012			2011
Revenues:
Subscriptions and transactions	$	20,374		$	13,486
Software licenses		4,158			4,060
Service and maintenance		28,876			29,120
Equipment and supplies		1,908			2,145
Total revenues		55,316			48,811
Cost of revenues:
Subscriptions and transactions		10,755			7,668
Software licenses		656			444
Service and maintenance		13,264			13,416
Equipment and supplies		1,514			1,665
Total cost of revenues		26,189			23,193
Gross profit		29,127			25,618
Operating expenses:
Sales and marketing		12,352			10,441
Product development and engineering		7,496			6,167
General and administrative		5,660			5,127
Amortization of intangible assets		3,734			2,786
Total operating expenses		29,242			24,521
Income (loss) from operations		(115	)		1,097
Other income, net		119			134
Income before income taxes		4			1,231
Provision for income taxes		1,336			136
Net income (loss)	$	(1,332	)	$	1,095
Basic net income (loss) per share attributable to common stockholders	$	(0.04	)	$	0.03
Diluted net income (loss) per share attributable to common stockholders	$	(0.04	)	$	0.03
Shares used in computing basic net income (loss) per share:		34,460			32,017
Shares used in computing diluted net income (loss) per share:		34,460			34,142
Core net income (excludes amortization of intangible assets, acquisition-related expenses, restructuring expenses and stock compensation expense):(1)
Net income	$	7,336		$	8,740
Diluted net income per share(2)	$	0.21		$	0.26

⁽¹⁾  Core net income excludes charges for amortization of intangible assets of $3,734 and $2,786, acquisition-related expenses of $706 and $822, restructuring expenses of $509 and $693 and equity-based compensation of $3,719 and $3,344, for the three months ended March 31, 2012 and 2011, respectively.

⁽²⁾  Shares used in diluted core net income per share were 35,607 and 34,142 for the three months ended March 31, 2012 and 2011, respectively.

Bottomline Technologies

Unaudited Condensed Consolidated Statements of Operations

(in thousands, except per share amounts)

	Nine Months Ended March 31,
	2012		2011
Revenues:
Subscriptions and transactions	$	57,022	$	38,051
Software licenses		12,593		11,702
Service and maintenance		87,392		79,124
Equipment and supplies		5,879		6,255
Total revenues		162,886		135,132
Cost of revenues:
Subscriptions and transactions		29,055		20,789
Software licenses		1,620		873
Service and maintenance		38,663		34,249
Equipment and supplies		4,650		4,820
Total cost of revenues		73,988		60,731
Gross profit		88,898		74,401
Operating expenses:
Sales and marketing		35,024		28,251
Product development and engineering		19,360		16,655
General and administrative		15,505		14,408
Amortization of intangible assets		11,051		8,572
Total operating expenses		80,940		67,886
Income from operations		7,958		6,515
Other income, net		34		448
Income before income taxes		7,992		6,963
Provision for income taxes(1)		5,119		1,128
Net income	$	2,873	$	5,835
Basic net income per share attributable to common stockholders	$	0.08	$	0.19
Diluted net income per share attributable to common stockholders	$	0.08	$	0.18
Shares used in computing basic net income per share:		34,110		31,367
Shares used in computing diluted net income per share:		35,179		33,127
Core net income (excludes amortization of intangible assets, acquisition-related expenses, restructuring expenses and stock compensation expense):(2)
Net income	$	25,748	$	25,498
Diluted net income per share	$	0.73	$	0.77

⁽¹⁾  The income tax benefit for the nine months ended March 31, 2011 includes a discrete tax benefit of $937.

⁽²⁾  Core net income excludes charges for amortization of intangible assets of $11,051 and $8,572, acquisition-related expenses of $1,007 and $1,572, restructuring expenses of $560 and $753 and equity-based compensation of $10,257 and $8,766, for the nine months ended March 31, 2012 and 2011, respectively.

Bottomline Technologies

Unaudited Condensed Consolidated Balance Sheets

(in thousands)

	March 31, 2012			June 30, 2011
Assets
Current assets:
Cash, cash equivalents and short-term investments	$	118,334		$	112,017
Accounts receivable		46,193			41,535
Other current assets		15,036			15,308
Total current assets		179,563			168,860
Property and equipment, net		17,675			16,098
Intangible assets, net		184,426			173,073
Other assets		6,341			5,303
Total assets	$	388,005		$	363,334
Liabilities and stockholders’ equity
Current liabilities:
Accounts payable	$	8,093		$	8,971
Accrued expenses		12,553			18,706
Deferred revenue		40,360			40,510
Total current liabilities		61,006			68,187
Deferred revenue, non-current		8,583			5,438
Deferred income taxes		1,959			2,208
Other liabilities		2,209			1,827
Total liabilities		73,757			77,660
Stockholders’ equity
Common stock		36			35
Additional paid-in-capital		433,859			408,375
Accumulated other comprehensive loss		(5,300	)		(4,524	)
Treasury stock		(19,787	)		(20,779	)
Accumulated deficit		(94,560	)		(97,433	)
Total stockholders’ equity		314,248			285,674
Total liabilities and stockholders’ equity	$	388,005		$	363,334