Form 10-Q

UNITED STATES
SECURITIES AND EXCHANGE COMMISSION

WASHINGTON, D.C. 20549

Form 10-Q

(Mark one)


þ		Quarterly Report pursuant to Section 13 or 15(d) of the Securities Exchange Act of 1934

For the quarterly period ended June 21, 2009


o		Transition Report pursuant to Section 13 or 15(d) of the Securities Exchange Act of 1934

For the transition period from to

Commission File Number 001-32627

HORIZON LINES, INC.

(Exact name of registrant as specified in its charter)


Delaware (State or other jurisdiction of incorporation or organization)		74-3123672 (I.R.S. Employer Identification No.)

4064 Colony Road, Suite 200, Charlotte, North Carolina (Address of principal executive offices)		28211 (Zip Code)

(704) 973-7000
(Registrant’s telephone number, including area code)

NOT APPLICABLE
(Former name, former address and former fiscal year, if changed since last report)

Indicate by check mark whether the registrant (1) has filed all reports required to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during the preceding 12 months (or for such a shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days. Yes þ No o

Indicate by check mark whether the registrant has submitted electronically and posted on its corporate website, if any, every Interactive Data File required to be submitted and posted pursuant to Rule 405 of Regulation S-T (§ 232.405 of this chapter) during the preceding 12 months (or for shorter period that the registrant was required to submit and post such files). Yes o No o

Indicate by check mark whether the Registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer or a smaller reporting company. See definition of “large accelerated filer,” “accelerated filer” and “smaller reporting company” in Rule 12b-2 of the Exchange Act. (Check one):


Large accelerated filer o	Accelerated filer þ	Non-accelerated filer o	Smaller reporting company o
		(Do not check if a smaller reporting company)

Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Exchange Act). Yes o No þ

Indicate the number of shares outstanding of each of the issuer’s classes of common stock, as of the latest practicable date.

At July 23, 2009, 30,224,199 shares of the Registrant’s common stock, par value $.01 per share, were outstanding.

PART I. FINANCIAL INFORMATION

1. Financial Statements

Horizon Lines, Inc.

Unaudited Condensed Consolidated Balance Sheets

(in thousands, except per share data)


				December 21,
	June 21,			2008
	2009			(As Adjusted)
Assets
Current assets
Cash	$	3,678		$	5,487
Accounts receivable, net of allowance of $7,879 and $8,217 at June 21, 2009 and December 21, 2008, respectively		134,636			135,299
Deferred tax asset		2,558			7,450
Prepaid vessel rent		10,575			4,471
Materials and supplies		26,464			23,644
Other current assets		10,060			10,424


Total current assets		187,971			186,775
Property and equipment, net		202,013			208,453
Goodwill		317,068			317,068
Intangible assets, net		117,372			125,542
Deferred tax asset		—			10,669
Other long-term assets		26,360			24,122


Total assets	$	850,784		$	872,629


Liabilities and Stockholders’ Equity
Current liabilities
Accounts payable	$	38,841		$	41,947
Current portion of long-term debt		12,802			6,552
Accrued vessel rent		—			5,421
Other accrued liabilities		111,104			97,720


Total current liabilities		162,747			151,640
Long-term debt, net of current portion		546,640			526,259
Deferred rent		24,821			27,058
Deferred tax liability		3,696			—
Other long-term liabilities		19,884			30,836


Total liabilities		757,788			735,793


Stockholders’ equity
Preferred stock, $.01 par value, 30,500 shares authorized, no shares issued or outstanding		—			—
Common stock, $.01 par value, 100,000 shares authorized, 34,024 shares issued and 30,224 shares outstanding as of June 21, 2009 and 33,808 shares issued and 30,008 shares outstanding as of December 21, 2008		340			338
Treasury stock, 3,800 shares at cost		(78,538	)		(78,538	)
Additional paid in capital		202,257			199,644
(Accumulated deficit) retained earnings		(25,635	)		22,094
Accumulated other comprehensive loss		(5,428	)		(6,702	)


Total stockholders’ equity		92,996			136,836


Total liabilities and stockholders’ equity	$	850,784		$	872,629

The accompanying notes are an integral part of these unaudited condensed consolidated financial statements.

Horizon Lines, Inc.

Unaudited Condensed Consolidated Statements of Operations

(in thousands, except per share amounts)


	Quarters Ended					Six Months Ended
				June 22,					June 22,
	June 21,			2008		June 21,			2008
	2009			(As Adjusted)		2009			(As Adjusted)
Operating revenue	$	278,484		$	330,958	$	550,835		$	636,905
Operating expense:
Cost of services (excluding depreciation expense)		226,339			268,699		455,998			521,669
Depreciation and amortization		11,165			11,550		22,140			22,875
Amortization of vessel dry-docking		3,609			4,400		7,407			8,775
Selling, general and administrative		28,006			28,873		55,774			54,004
Settlement of class action lawsuit		20,000			—		20,000			—
Restructuring charge		213			—		1,001			—
Impairment charge		659			—		659			—
Miscellaneous (income) expense, net		(300	)		752		(119	)		1,297


Total operating expense		289,691			314,274		562,860			608,620

Operating (loss) income		(11,207	)		16,684		(12,025	)		28,285
Other expense:
Interest expense, net		9,254			10,353		18,686			21,513
Loss on modification of debt		50			—		50			—
Other expense, net		11			4		10			1


(Loss) income before income tax expense		(20,522	)		6,327		(30,771	)		6,771
Income tax expense		10,561			493		10,264			212


Net (loss) income	$	(31,083	)	$	5,834	$	(41,035	)	$	6,559


Net (loss) income per share:
Basic	$	(1.02	)	$	0.19	$	(1.35	)	$	0.21
Diluted	$	(1.02	)	$	0.19	$	(1.35	)	$	0.21

Number of shares used in calculations:
Basic		30,438			30,193		30,431			30,343
Diluted		30,438			30,273		30,431			30,582

Dividends declared per common share	$	0.11		$	0.11	$	0.22		$	0.22

The accompanying notes are an integral part of these unaudited condensed consolidated financial statements.

Horizon Lines, Inc.

Unaudited Condensed Consolidated Statements of Cash Flows

(in thousands)


	Six Months Ended
				June 22,
	June 21,			2008
	2009			(As Adjusted)
Cash flows from operating activities:
Net (loss) income	$	(41,035	)	$	6,559
Adjustments to reconcile net (loss) income to net cash (used in) provided by operating activities:
Depreciation		11,824			12,211
Amortization of other intangible assets		10,316			10,664
Amortization of vessel dry-docking		7,407			8,775
Amortization of deferred financing costs		1,209			1,347
Impairment charge		659			—
Restructuring charge		1,001			—
Loss on modification of debt		50			—
Deferred income taxes		10,357			382
Gain on equipment disposals		(291	)		(23	)
Stock-based compensation		1,919			2,377
Accretion of interest on 4.25% convertible notes		4,905			4,357
Changes in operating assets and liabilities:
Accounts receivable		663			(18,425	)
Materials and supplies		(3,070	)		(4,118	)
Other current assets		150			435
Accounts payable		(3,106	)		(11,913	)
Accrued liabilities		12,780			22,786
Vessel rent		(13,361	)		(12,670	)
Vessel dry-docking payments		(8,593	)		(6,544	)
Other assets/liabilities		(992	)		362


Net cash (used in) provided by operating activities		(7,208	)		16,562


Cash flows from investing activities:
Purchases of property and equipment		(7,154	)		(7,462	)
Purchase of business		—			(198	)
Proceeds from the sale of property and equipment		853			208


Net cash used in investing activities		(6,301	)		(7,452	)


Cash flows from financing activities:
Payments on long-term debt		(3,275	)		(3,267	)
Borrowing under revolving credit facility		45,000			73,000
Payments on revolving credit facility		(20,000	)		(25,000	)
Dividends to stockholders		(6,694	)		(6,649	)
Payments of financing costs		(3,406	)		(137	)
Common stock issued under employee stock purchase plan		75			10
Purchase of treasury stock		—			(29,330	)
Payments on capital lease obligation		—			(60	)


Net cash provided by financing activities		11,700			8,567


Net (decrease) increase in cash		(1,809	)		17,677
Cash at beginning of period		5,487			6,276


Cash at end of period	$	3,678		$	23,953

The accompanying notes are an integral part of these unaudited condensed consolidated financial statements.

HORIZON LINES, INC.

NOTES TO CONDENSED CONSOLIDATED FINANCIAL STATEMENTS (UNAUDITED)

1. Organization

Horizon Lines, Inc. (the “Company”) operates as a holding company for Horizon Lines, LLC (“Horizon Lines”), a Delaware limited liability company and wholly-owned subsidiary, Horizon Logistics Holdings, LLC (“Horizon Logistics”), a Delaware limited liability company and wholly-owned subsidiary, Hawaii Stevedores, Inc. (“HSI”), and Horizon Lines of Puerto Rico, Inc. (“HLPR”), a Delaware corporation and wholly-owned subsidiary. Horizon Lines operates as a Jones Act container shipping business with primary service to ports within the continental United States, Puerto Rico, Alaska, Hawaii, and Guam. Under the Jones Act, all vessels transporting cargo between covered locations must, subject to limited exceptions, be built in the U.S., registered under the U.S. flag, manned by predominantly U.S. crews, and owned and operated by U.S.-organized companies that are controlled and 75% owned by U.S. citizens. Horizon Lines also offers terminal services. Horizon Logistics manages integrated logistics service offerings, including rail, trucking, distribution, and non-vessel operating common carrier (“NVOCC”) services. HLPR operates as an agent for Horizon Lines in Puerto Rico and also provides terminal services in Puerto Rico.

2. Basis of Presentation

The condensed consolidated financial statements include the accounts of the Company and its subsidiaries. All significant intercompany items have been eliminated in consolidation. As noted below, certain prior period balances have been adjusted to conform to recent accounting pronouncements.

The accompanying unaudited interim condensed consolidated financial statements have been prepared in accordance with the instructions to Form 10-Q and Rule 10-01 of Regulation S-X, and accordingly, certain financial information has been condensed and certain footnote disclosures have been omitted. Such information and disclosures are normally included in financial statements prepared in accordance with generally accepted accounting principles in the United States (“GAAP”). These financial statements should be read in conjunction with the consolidated financial statements and footnotes thereto included in the Company’s Annual Report on Form 10-K for the year ended December 21, 2008. The Company uses a 52 or 53 week (every sixth or seventh year) fiscal year that ends on the Sunday before the last Friday in December.

The financial statements as of June 21, 2009 and the financial statements for the quarters and six months ended June 21, 2009 and June 22, 2008 are unaudited; however, in the opinion of management, such statements include all adjustments necessary for the fair presentation of the financial information included herein, which are of a normal recurring nature. The preparation of consolidated financial statements in conformity with GAAP requires management to make estimates and assumptions and to use judgment that affects the amounts reported in the financial statements and accompanying notes. Actual results may differ from those estimates. Results of operations for interim periods are not necessarily indicative of results for the full year.

The Company has evaluated and has determined there were no material subsequent events through July 23, 2009, the date the financial statements were available to be issued.

In May 2008, the Financial Accounting Standards Board (“FASB”) issued Staff Position No. APB 14-1, “Accounting for Convertible Debt Instruments that may be Settled in Cash Upon Conversion” (“FSP APB 14-1”). FSP APB 14-1 requires that the liability and equity components of convertible debt instruments that may be settled in cash upon conversion (including partial cash settlement) be separately accounted for in a manner that reflects an issuer’s nonconvertible debt borrowing rate. As a result, the liability component would be recorded at a discount reflecting its below market coupon interest rate, and the liability component would be accreted to its par value over its expected life, with the rate of interest that reflects the market rate at issuance being reflected in the results of operations. This change in methodology affects the calculations of net income and earnings per share, but does not increase the Company’s cash interest payments. FSP APB 14-1 is effective for financial statements issued for fiscal years beginning after December 15, 2008, and interim periods within those fiscal years. Retrospective application to all periods presented is required and early adoption is prohibited. The Notes (as defined in Note 4) are within the scope of FSP APB 14-1. The Company has adopted the provisions of FSP APB 14-1, and as such, has adjusted the reported amounts in its Statements of Operations for the quarter and six months ended June 22, 2008 and Balance Sheet as of December 21, 2008 as follows (in thousands except per share amounts):

Statements of Operations:


	Quarter Ended June 22, 2008							Six Months Ended June 22, 2008
	As					As		As					As
	Reported		Adjustments			Adjusted		Reported		Adjustments			Adjusted

Interest expense, net	$	8,147	$	2,206		$	10,353	$	17,156	$	4,357		$	21,513
Income tax expense		1,298		(805	)		493		1,802		(1,590	)		212
Net income		7,235		(1,401	)		5,834		9,326		(2,767	)		6,559

Net income per share
Basic		0.24		(0.05	)		0.19		0.31		(0.10	)		0.21
Diluted		0.24		(0.05	)		0.19		0.31		(0.10	)		0.21

Balance Sheet:


	December 21, 2008
	As					As
	Reported		Adjustments			Adjusted

Intangible assets, net	$	126,697	$	(1,155	)	$	125,542
Deferred tax assets		23,992		(13,323	)		10,669
Total assets		887,107		(14,478	)		872,629

Long-term debt, net of current		563,916		(37,657	)		526,259
Additional paid in capital		168,779		30,865			199,644
Retained earnings		29,780		(7,686	)		22,094
Total liabilities and stockholders’ equity		887,107		(14,478	)		872,629

In June 2008, the FASB issued Staff Position No. EITF 03-6-1, “Determining Whether Instruments Granted in Share-Based Payment Transactions Are Participating Securities” (“FSP EITF 03-6-1”). FSP EITF 03-6-1 concludes that unvested share-based payment awards that contain rights to receive non-forfeitable dividends or dividend equivalents (whether paid or unpaid) are participating securities, and thus, should be included in the two-class method of computing earnings per share (“EPS”). FSP EITF 03-6-1 is effective for fiscal years beginning after December 15, 2008, and interim periods within those years. Retrospective application to all periods presented is required and early application is prohibited. The Company has adopted the provisions of FSP EITF 03-6-1 and as such, has adjusted the reported amounts of basic and diluted shares outstanding for the quarter and six months ended June 22, 2008 as follows:


	Quarter Ended June 22, 2008							Six Months Ended June 22, 2008
	As					As		As					As
	Reported		Adjustments			Adjusted		Reported		Adjustments			Adjusted

Denominator for basic net income per share		29,919		274			30,193		30,105		238			30,343
Effect of dilutive securities		244		(164	)		80		409		(170	)		239

Denominator for diluted net income per share		30,163		110			30,273		30,514		68			30,582

3. Restructuring

The Company completed its non-union workforce reduction initiative during the first quarter of 2009. The reduction in workforce impacted approximately 80 non-union employees and resulted in a $4.0 million restructuring charge. Of the $4.0 million, a charge of $3.2 million, or $0.11 per fully diluted share, was recorded during the fourth quarter of 2008 and the remaining $0.8 million was recorded during the first quarter of 2009. Of the $0.8 million recorded during the first quarter of 2009, $0.7 million was included within the Horizon Lines segment and the remaining $35 thousand was included in the Horizon Logistics segment. In addition, during the quarter ended June 21, 2009, the Company recorded an additional $0.2 million of severance costs related to the elimination of certain positions in connection with the loss of a major customer and a reorganization within the Horizon Logistics segment.

The following table presents the restructuring reserves at June 21, 2009, as well as activity during the year (in thousands):


	Balance at													Balance at
	December 21,										Charged to Other			June 21,
	2008		Provision		Payments			Adjustments			Accounts⁽¹⁾			2009
Personnel related costs	$	3,132	$	1,148	$	(2,534	)	$	(150	)	$	(485	)	$	1,111
Other associated costs		65		25		(60	)		(22	)		—			8

Total	$	3,197	$	1,173	$	(2,594	)	$	(172	)	$	(485	)	$	1,119


(1)		Includes $0.5 million of stock-based compensation recorded in additional paid in capital.

In the consolidated balance sheet, the reserve for restructuring costs is recorded in other accrued liabilities.

4. Long-Term Debt

Long-term debt consists of the following (in thousands):


				December 21,
	June 21,			2008
	2009			(As Adjusted)
Senior credit facility
Term loan	$	115,625		$	118,750
Revolving credit facility		145,000			120,000
4.25% convertible senior notes		297,248			292,343
Other		1,569			1,718


Total long-term debt		559,442			532,811
Less current portion		(12,802	)		(6,552	)


Long-term debt, net of current portion	$	546,640		$	526,259

Senior Credit Facility

On August 8, 2007, the Company entered into a credit agreement (the “Senior Credit Facility”) secured by substantially all of the owned assets of the Company. On June 11, 2009, the Senior Credit Facility was amended to reduce the size of the revolving credit facility from $250.0 million to $225.0 million. The terms of the Senior Credit Facility also provide for a $20.0 million swingline subfacility and a $50.0 million letter of credit subfacility.

The amendment to the Senior Credit Facility is intended to provide the Company the flexibility that it needs to effect the settlement of the Puerto Rico class action litigation and to incur antitrust related litigation expenses. The amendment revises the definition of Consolidated EBITDA by allowing for certain charges, including (i) the Puerto Rico settlement and (ii) litigation expenses related to antitrust litigation matters in an amount not to exceed $25 million in the aggregate and $15 million over a 12-month period, to be added back to the calculation of Consolidated EBITDA. In addition, the Senior Credit Facility was amended to (i) increase the spread over LIBOR and Prime based rates by 150 bps, (ii) increase the range of fees on the unused portion of the commitment, (iii) eliminate the $150 million incremental facility, (iv) modify the definition of Consolidated EBITDA to clarify the term “non-recurring charges”, and (v) incorporate other structural enhancements, including a step-down in the secured leverage ratio and further limitations on the ability to make certain restricted payments. As a result of the amendment to the Senior Credit Facility, the Company paid $3.4 million in financing costs and recorded a loss on modification of debt of $0.1 million during the quarter ended June 21, 2009.

The Company has made quarterly principal payments on the term loan of approximately $1.6 million since December 31, 2007, which will continue through September 30, 2009. Quarterly payments will increase to $4.7 million through September 30, 2011, at which point quarterly payments will increase to $18.8 million until final maturity on August 8, 2012. The interest rate payable under the Senior Credit Facility varies depending on the types of advances or loans the Company selects. Borrowings under the Senior Credit Facility bear interest primarily at LIBOR-based rates plus a spread which ranges from 2.75% to 3.5% (LIBOR plus 3.25% as of June 21, 2009) depending on the Company’s ratio of total secured debt to EBITDA (as defined in the Senior Credit Facility). The Company also has the option to borrow at Prime plus a spread which ranges from 1.75% to 2.5% (Prime plus 2.25% as of June 21, 2009). The weighted average interest rate at June 21, 2009 was approximately 4.8%, which includes the impact of the interest rate swap (as defined below). The Company also pays a variable commitment fee on the unused portion of the commitment, ranging from 0.375% to 0.50% (0.50% as of June 21, 2009). As of June 21, 2009, $71.9 million was available for borrowing under the revolving credit facility, after taking into account $145.0 million outstanding under the revolver and $8.1 million utilized for outstanding letters of credit.

The Senior Credit Facility contains customary affirmative and negative covenants and warranties, including two financial covenants with respect to the Company’s leverage and interest coverage ratio and limits the level of dividends and stock repurchases in addition to other restrictions. It also contains customary events of default, subject to grace periods. The Company was in compliance with all such covenants as of June 21, 2009.

Derivative Instruments

On March 31, 2008, the Company entered into an Interest Rate Swap Agreement (the “swap”) with Wachovia Bank, National Association (“Wachovia”) in the notional amount of $121.9 million. The swap expires on August 8, 2012. Under the swap, the Company and Wachovia have agreed to exchange interest payments on the notional amount on the last business day of each calendar quarter. The Company has agreed to pay a 3.02% fixed interest rate, and Wachovia has agreed to pay a floating interest rate equal to the three-month LIBOR rate. The critical terms of the swap agreement and the term loan are the same, including the notional amounts, interest rate reset dates, maturity dates and underlying market indices. The purpose of entering into this swap is to protect the Company against the risk of rising interest rates by effectively fixing the base interest rate payable related to its term loan. Interest rate differentials paid or received under the swap are recognized as adjustments to interest expense. The Company does not hold or issue interest rate swap agreements for trading purposes. In the event that the counter-party fails to meet the terms of the interest rate swap agreement, the Company’s exposure is limited to the interest rate differential. On December 31, 2008, Wells Fargo & Co. (“Wells Fargo”) announced that it had completed its merger with Wachovia. As a result of this transaction, Wells Fargo acquired all of Wachovia’s assets and obligations.

The swap has been designated as a cash flow hedge of the variability of the cash flows due to changes in LIBOR and has been deemed to be highly effective. Accordingly, the Company records the fair value of the swap as an asset or liability on its consolidated balance sheet, and any unrealized gain or loss is included in accumulated other comprehensive loss. As of June 21, 2009, the Company recorded a liability of $3.0 million, included in other long-term liabilities, in the accompanying condensed consolidated balance sheet. The Company also recorded $1.2 million and $1.1 million in other comprehensive loss for the quarter and six months ended June 21, 2009, respectively. No hedge ineffectiveness was recorded during the quarter and six months ended June 21, 2009. If the hedge was deemed ineffective, or extinguished by either counterparty, any accumulated gains or losses remaining in other comprehensive income would be fully recorded in interest expense during the period.

4.25% Convertible Senior Notes

On August 8, 2007, the Company issued $330.0 million aggregate principal amount of 4.25% Convertible Senior Notes due 2012 (the “Notes”). The Notes are general unsecured obligations of the Company and rank equally in right of payment with all of the Company’s other existing and future obligations that are unsecured and unsubordinated. The Notes bear interest at the rate of 4.25% per annum, which is payable in cash semi-annually on February 15 and August 15 of each year. The Notes mature on August 15, 2012, unless earlier converted, redeemed or repurchased in accordance with their terms prior to August 15, 2012. Holders of the Notes may require the Company to repurchase the Notes for cash at any time before August 15, 2012 if certain fundamental changes occur.

Each $1,000 of principal of the Notes will initially be convertible into 26.9339 shares of the Company’s common stock, which is the equivalent of $37.13 per share, subject to adjustment upon the occurrence of specified events set forth under the terms of the Notes. Upon conversion, the Company would pay the holder the cash value of the applicable number of shares of its common stock, up to the principal amount of the note. Amounts in excess of the principal amount, if any, may be paid in cash or in stock, at the Company’s option. Holders may convert their Notes into the Company’s common stock as follows:

	•		Prior to May 15, 2012, if during any calendar quarter, and only during such calendar quarter, if the last reported sale price of the Company’s common stock for at least 20 trading days in a period of 30 consecutive trading days ending on the last trading day of the preceding calendar quarter exceeds 120% of the applicable conversion price in effect on the last trading day of the immediately preceding calendar quarter;

	•		During any five business day period prior to May 15, 2012, immediately after any five consecutive trading day period (the “measurement period”) in which the trading price per $1,000 principal amount of notes for each day of such measurement period was less than 98% of the product of the last reported sale price of the Company’s common stock on such date and the conversion rate on such date;

	•		If, at any time, a change in control occurs or if the Company is a party to a consolidation, merger, binding share exchange or transfer or lease of all or substantially all of its assets, pursuant to which the Company’s common stock would be converted into cash, securities or other assets; or

	•		At any time after May 15, 2012 through the fourth scheduled trading day immediately preceding August 15, 2012.

Holders who convert their Notes in connection with a change in control may be entitled to a make-whole premium in the form of an increase in the conversion rate. In addition, upon a change in control, liquidation, dissolution or de-listing, the holders of the Notes may require the Company to repurchase for cash all or any portion of their Notes for 100% of the principal amount plus accrued and unpaid interest. As of June 21, 2009, none of the conditions allowing holders of the Notes to convert or requiring the Company to repurchase the Notes had been met. The Company may not redeem the Notes prior to maturity.

Concurrent with the issuance of the Notes, the Company entered into note hedge transactions with certain financial institutions whereby if the Company is required to issue shares of its common stock upon conversion of the Notes, the Company has the option to receive up to 8.9 million shares of its common stock when the price of the Company’s common stock is between $37.13 and $51.41 per share upon conversion, and the Company sold warrants to the same financial institutions whereby the financial institutions have the option to receive up to 17.8 million shares of the Company’s common stock when the price of the Company’s common stock exceeds $51.41 per share upon conversion. In June 2008, the Company obtained approval from its shareholders to increase the number of authorized but unissued shares such that the number of shares available for issuance to the financial institutions increased from 4.6 million to 17.8 million. The separate note hedge and warrant transactions were structured to reduce the potential future share dilution associated with the conversion of Notes. The cost of the note hedge transactions to the Company was approximately $52.5 million, $33.4 million net of tax, and has been accounted for as an equity transaction in accordance with EITF No. 00-19, “Accounting for Derivative Financial Instruments Indexed to, and Potentially Settled in, a Company’s Own Stock” (“EITF No. 00-19”).The Company received proceeds of $11.9 million related to the sale of the warrants, which has also been classified as equity because the warrants meet all of the equity classification criteria within EITF No. 00-19.

In accordance with Statement of Financial Accounting Standards (“SFAS”) No. 128, the Notes and the warrants sold in connection with the hedge transactions will have no impact on diluted earnings per share until the price of the Company’s common stock exceeds the conversion price (initially $37.13 per share) because the principal amount of the Notes will be settled in cash upon conversion. Prior to conversion of the Notes or exercise of the warrants, the Company will include the effect of the additional shares that may be issued if its common stock price exceeds the conversion price, using the treasury stock method. The call options purchased as part of the note hedge transactions are anti-dilutive and therefore will have no impact on earnings per share.

Other Debt

In conjunction with the acquisition of HSI in 2007, the Company assumed a $2.2 million note payable. The note is secured by the assets of HSI. The note bears interest at 5.26% per year and requires monthly payments of $32 thousand until maturity on February 24, 2014.

5. Income Taxes

During 2006, the Company elected the application of tonnage tax. The Company’s effective tax rate is impacted by the Company’s income from qualifying shipping activities as well as the income from the Company’s non-qualifying shipping activities and will fluctuate based on the ratio of income from qualifying and non-qualifying activities.

As of June 21, 2009, the Company has net operating loss carryforwards in the amount of $104.3 million and $17.4 million for federal income tax purposes and for state income tax purposes, respectively. The federal and state net operating loss carryforwards begin to expire in 2024 and 2019, respectively.

SFAS 109, “Accounting for Income Taxes”, requires the Company to periodically assess whether it is more likely than not that it will generate sufficient taxable income to realize its deferred income tax assets. The ultimate realization of deferred tax assets is dependent upon the generation of future taxable income (including the reversal of deferred tax liabilities) during the periods in which those temporary differences will become deductible. In making this determination, the Company considers all available positive and negative evidence and makes certain assumptions. The Company considers, among other things, its deferred tax liabilities, the overall business environment, its historical earnings and losses and its outlook for future years.

During the second quarter of 2009, the Company determined that it was unclear as to the timing of when it will generate sufficient taxable income to realize its deferred tax assets. Accordingly, the Company recorded a valuation allowance of $13.5 million against its deferred tax assets, which resulted in a $10.5 million income tax provision on its Condensed Consolidated Statements of Operations. Until such time that the Company determines it is more likely than not that it will generate sufficient taxable income to realize its deferred tax assets, income tax benefits associated with future period losses will be fully reserved.

6. Stock-Based Compensation

The Company accounts for its stock-based compensation plans in accordance with SFAS No. 123 (Revised) “Share-Based Payment” (“SFAS 123R”). Under SFAS 123R, all stock-based compensation costs are measured at the grant date, based on the estimated fair value of the award, and are recognized as an expense in the income statement over the requisite service period.

Compensation costs related to stock options and restricted shares granted under the Amended and Restated Equity Incentive Plan (the “Plan”), the 2009 Incentive Compensation Plan (the “2009 Plan”), and purchases under the Employee Stock Purchase Plan, as amended (“ESPP”) are recognized using the straight-line method, net of estimated forfeitures. Stock options and restricted shares granted to employees under the Plan or the 2009 Plan typically cliff vest and become fully exercisable on the third anniversary of the grant date, provided the employee who was granted such option is continuously employed by the Company or its subsidiaries through such date, and provided any performance based criteria, if any, are met. In addition, recipients who retire from the Company and meet certain age and length of service criteria are typically entitled to proportionate vesting. The following compensation costs are included within selling, general, and administrative expenses on the condensed consolidated statements of operations (in thousands):


	Quarters Ended				Six Months Ended
	June 21,		June 22,		June 21,		June 22,
	2009		2008		2009		2008

Stock options	$	290	$	361	$	671	$	844
Restricted stock		689		745		1,248		1,368
ESPP		—		85		—		165


Total	$	979	$	1,191	$	1,919	$	2,377

Stock Options

The Company’s stock option plan provides for grants of stock options to key employees at prices not less than the fair market value of the Company’s common stock on the grant date. A summary of stock option activity is presented below:


						Weighted-
				Weighted-		Average		Aggregate
				Average		Remaining		Intrinsic
	Number of			Exercise		Contractual		Value
Options	Options			Price		Term (years)		(000’s)
Outstanding at December 21, 2008		1,633,942		$	15.77
Granted		—
Exercised		—
Forfeited		(78,952	)		18.68
Expired		(37,800	)		10.00


Outstanding at June 21, 2009		1,517,190		$	15.79		7.05	$	—


Vested or expected to vest at June 21, 2009		1,501,332		$	15.72		7.04	$	—


Exercisable at June 21, 2009		1,053,879		$	11.70		6.58	$	—

As of June 21, 2009, there was $1.1 million in unrecognized compensation costs related to stock options granted, which is expected to be recognized over a weighted average period of 1.2 years.

Restricted Stock

A summary of the status of the Company’s restricted stock awards as of June 21, 2009 is presented below:


				Weighted-
				Average
				Fair Value
	Number of			at Grant
Restricted Shares	Shares			Date
Nonvested at December 21, 2008		428,812		$	21.39
Granted		558,295			3.65
Vested		(120,777	)		12.75
Forfeited		(61,667	)		20.54


Nonvested at June 21, 2009		804,663		$	10.45

As of June 21, 2009, there was $3.3 million of unrecognized compensation expense related to all restricted stock awards, which is expected to be recognized over a weighted-average period of 1.9 years.

7. Net (Loss) Income per Common Share

In accordance with SFAS No. 128, “Earnings Per Share” (“SFAS 128”), basic net (loss) income per share is computed by dividing net (loss) income by the weighted daily average number of shares of common stock outstanding during the period. Diluted net (loss) income per share is based upon the weighted daily average number of shares of common stock outstanding for the period plus dilutive potential shares of common stock, including stock options, using the treasury-stock method.

Net (loss) income per share are as follows (in thousands, except per share amounts):


	Quarters Ended					Six Months Ended
				June 22,					June 22,
	June 21,			2008		June 21,			2008
	2009			(As Adjusted)		2009			(As Adjusted)
Numerator:
Net (loss) income	$	(31,083	)	$	5,834	$	(41,035	)	$	6,559


Denominator:
Denominator for basic (loss) income per common share:
Weighted average shares outstanding		30,438			30,193		30,431			30,343

Effect of dilutive securities:
Stock-based compensation		—			80		—			239

Denominator for diluted net (loss) income per common share		30,438			30,273		30,431			30,582

Basic net (loss) income per common share	$	(1.02	)	$	0.19	$	(1.35	)	$	0.21


Diluted net (loss) income per common share	$	(1.02	)	$	0.19	$	(1.35	)	$	0.21

Certain of the Company’s unvested stock-based awards contain non-forfeitable rights to dividends. As a result, a total of 253,678 and 274,716 shares have been included in the denominator for basic (loss) income per share for these participating securities during the quarter and six months ended June 21, 2009, respectively. In addition, a total of 442,695 and 234,771 shares have been excluded from the denominator for diluted net loss per common share during the quarter and six months ended June 21, 2009, respectively, as the impact would be anti-dilutive.

8. Comprehensive (Loss) Income

Comprehensive (loss) income is as follows (in thousands):


	Quarters Ended					Six Months Ended
				June 22,					June 22,
	June 21,			2008		June 21,			2008
	2009			(As Adjusted)		2009			(As Adjusted)

Net (loss) income	$	(31,083	)	$	5,834	$	(41,035	)	$	6,559
Change in fair value of interest rate swap		1,232			2,373		1,057			2,373
Amortization of pension and post-retirement benefit transition obligation		115			26		217			31


Comprehensive (loss) income	$	(29,736	)	$	8,233	$	(39,761	)	$	8,963

9. Segment Reporting

The Company’s services can be classified into two principal businesses referred to as Horizon Lines and Horizon Logistics. Through Horizon Lines, the Company provides container shipping services and terminal services primarily in the non-contiguous domestic U.S. trades, owning or leasing vessels comprising a fleet of 21 U.S.-flag containerships and five port terminals linking the continental U.S. with Alaska, Hawaii, Guam, Micronesia, Asia and Puerto Rico. Horizon Logistics was created in September 2007 to manage the Company’s then existing customized logistics solutions and to focus on the growth and further development of integrated logistics services. Although the Company provided certain ground transportation services prior to 2008, the primary focus of the Company was the core container shipping services and terminal services.

Inter-segment revenues are presented at prices which approximate market. The information below contains certain allocations of expenses that the Company deems reasonable and appropriate for the evaluation of results of operations. The Company does not allocate interest expense or income taxes to its segments. All inter-segment asset balances have been eliminated in consolidation. Certain segment information for the quarter and six months ended June 22, 2008 has been reclassified to conform to the presentation for the quarter and six months ended June 21, 2009. The following table presents information about the results of operations and the assets of the Company’s two reportable segments for the fiscal quarters and six months ended June 21, 2009 and June 22, 2008 (in thousands):


	Quarters Ended						Six Months Ended
				June 22,						June 22,
	June 21,			2008			June 21,			2008
	2009			(As Adjusted)			2009			(As Adjusted)
Operating revenue:
Horizon Lines	$	271,209		$	323,036		$	536,256		$	620,953
Horizon Logistics		37,529			57,249			74,792			108,706

		308,738			380,285			611,048			729,659
Inter-segment revenue		(30,254	)		(49,327	)		(60,213	)		(92,754	)

Consolidated operating revenue	$	278,484		$	330,958		$	550,835		$	636,905


Depreciation and amortization:
Horizon Lines	$	14,676		$	15,697		$	29,352		$	31,154
Horizon Logistics		98			253			195			526

		14,774			15,950			29,547			31,680
Eliminations		—			—			—			(30	)

Consolidated depreciation and amortization	$	14,774		$	15,950		$	29,547		$	31,650


Segment operating (loss) income:
Horizon Lines	$	(8,791	)	$	17,735		$	(7,170	)	$	30,440
Horizon Logistics		(2,416	)		(1,051	)		(4,855	)		(2,155	)

Consolidated operating (loss) income		(11,207	)		16,684			(12,025	)		28,285

Unallocated interest expense, net		9,254			10,353			18,686			21,513
Loss on modification of debt		50			—			50			—
Unallocated other income, net		11			4			10			1

Consolidated (loss) income before income tax expense	$	(20,522	)	$	6,327		$	(30,771	)	$	6,771


Capital expenditures:
Horizon Lines	$	3,595		$	3,452		$	6,887		$	6,430
Horizon Logistics		244			566			267			1,032

Consolidated capital expenditures	$	3,839		$	4,018		$	7,154		$	7,462


	June 21,
	2009
Segment assets:
Horizon Lines	$	840,420
Horizon Logistics		10,364

Consolidated assets	$	850,784

10. Property and Equipment

Property and equipment consists of the following (in thousands):


	June 21,			December 21,
	2009			2008
Vessels and vessel improvements	$	149,363		$	149,557
Containers		24,431			24,099
Chassis		14,537			14,713
Cranes		35,885			26,852
Machinery and equipment		27,218			26,127
Facilities and land improvements		21,244			20,718
Software		21,984			20,875
Construction in progress		26,350			34,382


Total property and equipment		321,012			317,323
Accumulated depreciation		(118,999	)		(108,870	)


Property and equipment, net	$	202,013		$	208,453

During the quarter ended June 21, 2009, the Company recorded an impairment charge of $0.7 million related to the write-down of spare vessels.

11. Intangible Assets

Intangible assets consist of the following (in thousands):


				December 21,
	June 21,			2008
	2009			(As Adjusted)
Customer contracts/relationships	$	142,475		$	142,475
Trademarks		63,800			63,800
Deferred financing costs		14,277			11,388
Non-compete agreements		262			262


Total intangibles with definite lives		220,814			217,925
Accumulated amortization		(103,442	)		(92,383	)


Net intangibles with definite lives		117,372			125,542
Goodwill		317,068			317,068


Intangible assets, net	$	434,440		$	442,610

As a result of the amendment to the Senior Credit Facility, the Company paid $3.4 million in financing costs and recorded a loss on modification of debt of $0.1 million during the quarter ended June 21, 2009.

12. Accrued Liabilities

Other accrued liabilities consist of the following (in thousands):


	June 21,		December 21,
	2009		2008
Vessel operations	$	19,860	$	18,681
Payroll and employee benefits		15,452		13,943
Marine operations		10,157		12,162
Terminal operations		10,611		11,847
Fuel		4,721		7,443
Interest		6,658		6,437
Settlement of class action lawsuit		20,000		—
Restructuring costs		1,119		3,069
Other liabilities		22,526		24,138


Total other accrued liabilities	$	111,104	$	97,720

13. Fair Value Measurement

On December 24, 2007, the Company adopted SFAS 157, “Fair Value Measurements” (“SFAS 157”). This statement defines fair value, establishes a framework for using fair value to measure assets and liabilities, and expands disclosures about fair value measurements. SFAS 157 establishes a three-tier value hierarchy, which prioritizes the inputs used in measuring fair value as follows:


		Level 1:		observable inputs such as quoted prices in active markets

		Level 2:		inputs other than the quoted prices in active markets that are observable either directly or indirectly

		Level 3:		unobservable inputs in which there is little or no market data, which requires the Company to develop its own assumptions

This hierarchy requires the Company to use observable market data, when available, and to minimize the use of unobservable inputs when determining fair value. On a recurring basis, the Company measures the interest rate swap at its estimated fair value. The fair value of the swap is determined using the market standard methodology of netting the discounted future fixed cash payments (or receipts) and the discounted expected variable cash receipts (or payments). The variable cash receipts (or payments) are based on an expectation of future interest rates (forward curves) derived from observable market interest rate curves.

The unrealized loss on the interest rate swap of $3.0 million is classified within level 2 of the fair value hierarchy of SFAS No. 157. No other assets or liabilities are measured at fair value under SFAS No. 157 as of June 21, 2009.

14. Pension and Post-retirement Benefit Plans

The Company provides pension and post-retirement benefit plans for certain of its union workers. Each of the plans is described in more detail below. A decline in the value of assets held by these plans, caused by recent negative performance of the investments in the financial markets, and lower discount rates due to falling interest rates, may result in higher contributions to these plans.

Pension Plans

The Company sponsors a defined benefit plan covering approximately 30 union employees as of June 21, 2009. The plan provides for retirement benefits based only upon years of service. Employees whose terms and conditions of employment are subject to or covered by the collective bargaining agreement between Horizon Lines and the International Longshore & Warehouse Union Local 142 are eligible to participate once they have completed one year of service. Contributions to the plan are based on the projected unit credit actuarial method and are limited to the amounts that are currently deductible for income tax purposes. The Company recorded net periodic benefit costs of $0.2 million and $0.1 million during the quarters ended June 21, 2009 and June 22, 2008, respectively, and $0.4 million and $0.2 million during the six months ended June 21, 2009 and June 22, 2008, respectively.

As part of the acquisition of HSI, the Company assumed net liabilities related to a pension plan covering approximately 50 salaried employees. The pension plan was frozen to new entrants as of December 31, 2005. Contributions to the plan are based on the projected unit credit actuarial method and are limited to the amounts that are currently deductible for income tax purposes. The Company recorded net periodic benefit costs of $0.1 million and $16 thousand during the quarters ended June 21, 2009 and June 22, 2008, respectively, and $0.1 million and $33 thousand during the six months ended June 21, 2009 and June 22, 2008, respectively.

The Company expects to make contributions to the above mentioned pension plans totaling $1.9 million during 2009, including a contribution of $1.1 million made in April 2009 in order to satisfy the funding requirements of the Worker, Retiree, and Employer Recovery Act.

Post-retirement Benefit Plans

In addition to providing pension benefits, the Company provides certain healthcare (both medical and dental) and life insurance benefits for eligible retired members (“post-retirement benefits”). For eligible employees hired on or before July 1, 1996, the healthcare plan provides for post-retirement health coverage for an employee who, immediately preceding his/her retirement date, was an active participant in the retirement plan and has attained age 55 as of his/her retirement date. For eligible employees hired after July 1, 1996, the plan provides post-retirement health coverage for an employee who, immediately preceding his/her retirement date, was an active participant in the retirement plan and has attained a combination of age and service totaling 75 years or more as of his/her retirement date. The net periodic benefit costs related to the post-retirement benefits were $0.2 million during each of the quarters ended June 21, 2009 and June 22, 2008, and $0.4 million and $0.3 million during the six months ended June 21, 2009 and June 22, 2008, respectively.

As part of the acquisition of HSI, the Company assumed liabilities related to post-retirement medical, dental and life insurance benefits for eligible active and retired employees. Effective June 25, 2007, the plan provides for post-retirement medical, dental and life insurance benefits for salaried employees who had attained age 55 and completed 20 years of service as of December 31, 2005. Any salaried employee already receiving post-retirement medical coverage as of June 25, 2007 will continue to be covered by the plan. For eligible union employees hired on or before July 1, 1996, the healthcare plan provides for post-retirement medical coverage for an employee who, immediately preceding his/her retirement date, was an active participant in the retirement plan and has attained age 55 as of his/her retirement date. For eligible union employees hired after July 1, 1996, the plan provides post-retirement health coverage for an employee who, immediately preceding his/her retirement date, was an active participant in the retirement plan and has attained age 55 and has a combination of age and service totaling 75 years or more as of his/her retirement date. The Company recorded net periodic benefit costs of $0.1 million during each of the quarters ended June 21, 2009 and June 22, 2008, and $0.2 million during each of the six months ended June 21, 2009 and June 22, 2008.

Other Plans

Under collective bargaining agreements, the Company participates in a number of union-sponsored, multi-employer benefit plans. Payments to these plans are made as part of aggregate assessments generally based on hours worked, tonnage of cargo moved, or a combination thereof. Expense for these plans is recognized as contributions are funded. The Company made contributions of $2.3 million and $2.4 million during the quarters ended June 21, 2009 and June 22, 2008, respectively, and $4.5 million and $4.7 million during the six months ended June 21, 2009 and June 22, 2008, respectively. In addition to the higher contributions the Company may be required to make as a result of recent negative performance of the investments in the financial markets, and lower discount rates due to falling interest rates, the Company may be required to make additional payments related to tonnage assessments as a result of lower container volumes. If the Company exits these markets, it may be required to pay a potential withdrawal liability if the plans are underfunded at the time of the withdrawal. Any adjustments would be recorded when it is probable that a liability exists and it is determined that markets will be exited.

15. Commitments and Contingencies

Legal Proceedings

On April 17, 2008, the Company received a grand jury subpoena and search warrant from the U.S. District Court for the Middle District of Florida seeking information regarding an investigation by the Antitrust Division of the Department of Justice (the “DOJ”) into possible antitrust violations in the domestic ocean shipping business. Subsequently, the DOJ expanded the timeframe covered by the subpoena. The Company is currently providing documents to the DOJ in response to the subpoena. The Company intends to cooperate fully with the DOJ in its investigation.

The Company has entered into a conditional amnesty agreement with the DOJ under its Corporate Leniency Policy. The amnesty agreement pertains to a single contract relating to ocean shipping services provided to the United States Department of Defense. The DOJ has agreed to not bring any criminal prosecution with respect to that government contract as long as the Company, among other things, continues its full cooperation in the investigation. The amnesty does not bar a claim for damages that may be sought by the DOJ under any applicable federal law or regulation.

Subsequent to the commencement of the DOJ investigation, a number of purported class action lawsuits were filed against the Company and other domestic shipping carriers. Fifty-six cases have been filed in the following federal district courts: eight in the Southern District of Florida, six in the Middle District of Florida, nineteen in the District of Puerto Rico, eleven in the Northern District of California, two in the Central District of California, one in the District of Oregon, eight in the Western District of Washington, and one in the District of Alaska. All of the foregoing district court cases that related to ocean shipping services in the Puerto Rico tradelane were consolidated into a single multidistrict litigation (“MDL”) proceeding in the District of Puerto Rico. All of the foregoing district court cases that related to ocean shipping services in the Hawaii and Guam tradelanes were consolidated into MDL proceedings in the Western District of Washington. One district court case remains in the District of Alaska, relating to the Alaska tradelane.

Each of the federal district court cases purports to be on behalf of a class of individuals and entities who purchased domestic ocean shipping services from the various domestic ocean carriers. The complaints allege price-fixing in violation of the Sherman Act and seek treble monetary damages, costs, attorneys’ fees, and an injunction against the allegedly unlawful conduct.

On June 11, 2009, the Company entered into a settlement agreement with the plaintiffs in the Puerto Rico MDL litigation. Under the settlement agreement, which is subject to Court approval, the Company has agreed to pay $20.0 million and to certain base-rate freezes to resolve claims for alleged antitrust violations in the Puerto Rico tradelane. Subsequent to June 21, 2009, the Company paid $5.0 million into an escrow account pursuant to the terms of the settlement agreement and will be required to pay $5.0 million within 90 days after preliminary approval of the settlement agreement by the district court and $10.0 million within five business days after final approval of the settlement agreement by the district court.

The base-rate freeze component of the settlement agreement provides that class members who have contracts in the Puerto Rico trade with the Company as of the effective date of the settlement would have the option, in lieu of receiving cash, to have their “base rates” frozen for a period of two years. The base-rate freeze would run for two years from the expiration of the contract in effect on the effective date of the settlement. All class members would be eligible to share in the $20.0 million cash component, but only contract customers of the Company would be eligible to elect the base-rate freeze in lieu of receiving cash. The Company has the right to terminate the settlement agreement under certain circumstances. On July 8, 2009, the plaintiffs filed a motion for preliminary approval of the settlement agreement in the Puerto Rico MDL litigation.

On March 20, 2009, the Company filed a motion to dismiss the claims in the Hawaii and Guam MDL litigation. The plaintiffs filed a response to the Company’s motion to dismiss on April 20, 2009, and the Company filed a reply on May 8, 2009. The court has scheduled a hearing on July 29, 2009 to consider the Company’s motion to dismiss. Discovery in the Alaska MDL litigation has been stayed. The Company intends to vigorously defend itself against those purported class action lawsuits.

In addition, on July 9, 2008, a complaint was filed by Caribbean Shipping Services, Inc. in the Circuit Court, 4th Judicial Circuit in and for Duval County, Florida, against the Company and other domestic shipping carriers alleging price-fixing in violation of the Florida Antitrust Act and the Florida Deceptive and Unlawful Trade Practices Act. The complaint seeks treble damages, injunctive relief, costs and attorneys’ fees. The case is not brought as a class action. This matter is pending discovery.

Through June 21, 2009, the Company has incurred approximately $19.2 million in legal and professional fees associated with the DOJ investigation and the antitrust related litigation. At June 21, 2009, a reserve of $20.0 million related to the settlement of the Puerto Rico MDL litigation has been included in other accrued liabilities on the Company’s condensed consolidated balance sheet. The Company is unable to predict the outcome of the Hawaii and Guam MDL litigation, the Alaska class-action litigation and the Florida Circuit Court litigation. The Company has not made any provision for any of these claims in the accompanying financial statements. It is possible that the outcome of these proceedings could have a material adverse effect on the Company’s financial condition, cash flows and results of operations.

In addition, in connection with the DOJ investigation, it is possible that the Company could suffer criminal prosecution and be required to pay a substantial fine. The Company has not made a provision for any possible fines or penalties in the accompanying financial statements, and the Company can give no assurance that the final resolution of the DOJ investigation will not result in significant liability and will not have a material adverse effect on the Company’s financial condition cash flows and results of operations.

Two securities class action lawsuits were filed in the United States District Court for the District of Delaware, naming the Company and five current and former employees, including its Chief Executive Officer, as defendants. The first complaint was filed on December 31, 2008 and the second complaint was filed on January 27, 2009, but was subsequently voluntarily dismissed by the plaintiffs. Each complaint purports to be on behalf of purchasers of the Company’s common stock during the period from March 2, 2007 through April 25, 2008. The complaints allege, among other things, that the Company made material misstatements and omissions in connection with alleged price-fixing in the Company’s shipping business in Puerto Rico in violation of antitrust laws. The Company is unable to predict the outcome of these lawsuits; however, the Company believes that it has appropriate disclosure practices and intends to vigorously defend against the lawsuits.

On May 13, 2009, the Company was served with a complaint filed by a shareholder in Delaware Chancery Court seeking production of certain books and records pursuant to Section 220 on the Delaware General Corporation law. The Company is working with the plaintiff to see if agreement can be reached on the scope of the required document production.

In the ordinary course of business, from time to time, the Company and its subsidiaries become involved in various legal proceedings. These relate primarily to claims for loss or damage to cargo, employees’ personal injury claims, and claims for loss or damage to the person or property of third parties. The Company and its subsidiaries generally maintain insurance, subject to customary deductibles or self-retention amounts, and/or reserves to cover these types of claims. The Company and its subsidiaries also, from time to time, become involved in routine employment-related disputes and disputes with parties with which they have contracts.

SFL Agreements

In April 2006, the Company completed a series of agreements with Ship Finance International Limited and certain of its subsidiaries (“SFL”) to charter five new non-Jones Act qualified container vessels. The bareboat charter for each new vessel is a “hell or high water” charter, and the obligation of the Company to pay charter hire thereunder for the vessel is absolute and unconditional. The aggregate annual charter hire for all of the five new vessels is approximately $32.0 million. Under the charters, the Company is responsible for crewing, insuring, maintaining, and repairing each vessel and for all other operating costs with respect to each vessel. The term of each of the bareboat charters is twelve years from the date of delivery of the related vessel, with a three year renewal option exercisable by the Company. In addition, the Company has the option to purchase all of the new vessels following the five, eight, twelve, and, if applicable, fifteen year anniversaries of the date of delivery at pre-agreed purchase prices. If the Company elects to purchase all of the vessels after the five or eight year anniversary date, it will have the right to assume the outstanding debt related to each purchased vessel, and the amount of the debt so assumed will be credited against the purchase price paid for the vessels. If the Company elects not to purchase the new vessels at the end of the initial twelve-year period and SFL sells the new vessels for less than a specified amount, the Company is responsible for paying the amount of such shortfall, which shall not exceed $3.8 million per new vessel. If the new vessels are to be sold by SFL to an affiliated party for less than a different specified amount, the Company has the right to purchase the new vessels for that different specified amount.

Although the Company is not the primary beneficiary of the variable interest entities created in conjunction with the SFL transactions, the Company has an interest in the variable interest entities. Based on the Company’s analysis of the expected cash flows related to the variable interest entity, the Company believes only a remote likelihood exists that it would become the primary beneficiary of the variable interest entity and would be required to consolidate the variable interest entity. Certain contractual obligations and off-balance sheet obligations arising from this transaction include the annual operating lease obligations and the residual guarantee. The Company is accounting for the leases as operating leases. The residual guarantee is recorded at its fair value of approximately $0.2 million as a liability on the Company’s balance sheet.

Standby Letters of Credit

The Company has standby letters of credit primarily related to its property and casualty insurance programs. On June 21, 2009 and December 21, 2008, amounts outstanding on these letters of credit totaled $8.1 million and $8.3 million, respectively.

16. Recent Accounting Pronouncements

In June 2009, the FASB issued SFAS No. 168, “The FASB Accounting Standards Codification and the Hierarchy of Generally Accepted Accounting Principles” (“SFAS 168”). SFAS 168 establishes the FASB Accounting Standards Codification, (“Codification”) as the single source of authoritative GAAP to be applied by nongovernmental entities, except for the rules and interpretive releases of the SEC under authority of federal securities laws, which are sources of authoritative GAAP for SEC registrants. All guidance contained in the Codification carries an equal level of authority. The Codification does not change GAAP. SFAS 168 is effective for interim and annual periods ending on or after September 15, 2009. The adoption of SFAS 168 is not expected to have any impact on the Company’s consolidated results of operations and financial position.

In May 2009, the FASB issued SFAS No. 165, “Subsequent Events” (“SFAS 165”). SFAS 165 establishes general standards of accounting for and disclosure of events that occur after the balance sheet date, but before the financial statements are issued or are available to be issued. SFAS 165 requires the disclosure of the date through which an entity has evaluated subsequent events and the basis for that date—that is, whether that date represents the date the financial statements were issued or were available to be issued. This disclosure is intended to alert all users of financial statements that an entity has not evaluated subsequent events after that date in the set of financial statements being presented. SFAS 165 is effective on a prospective basis for interim or annual periods ending after June 15, 2009. The adoption of SFAS 165 did not have any impact on the Company’s consolidated results of operations and financial position.

In March 2008, the FASB issued SFAS No. 161, “Disclosures about Derivative Instruments and Hedging Activities” (“SFAS 161”). SFAS 161 requires companies with derivative instruments to disclose information that should enable financial statement users to understand how and why a company uses derivative instruments, how derivative instruments and related hedged items are accounted for under FASB Statement No. 133 “Accounting for Derivative Instruments and Hedging Activities” and how derivative instruments and related hedged items affect a company’s financial position, financial performance and cash flows. SFAS 161 is effective for financial statements issued for fiscal years beginning after November 15, 2008. As this statement relates only to disclosure requirements, the adoption did not have an impact on the Company’s results of operations or financial position.

In December 2007, the FASB issued SFAS No. 160, “Noncontrolling Interests in Consolidated Financial Statements” (“SFAS 160”). SFAS 160 establishes accounting and reporting standards for ownership interests in subsidiaries held by parties other than the parent, the amount of consolidated net income attributable to the parent and to the noncontrolling interest, changes in a parent’s ownership interest and the valuation of retained noncontrolling equity investments when a subsidiary is deconsolidated. SFAS 160 also establishes reporting requirements that provide sufficient disclosures that clearly identify and distinguish between the interests of the parent and the interests of the noncontrolling owners. The adoption did not have an impact on the Company’s results of operations or financial position.

In December 2007, the FASB issued SFAS No. 141R, “Business Combinations” (“SFAS 141R”). SFAS 141R replaces SFAS 141 and establishes principles and requirements for how an acquirer recognizes and measures in its financial statements the identifiable assets acquired, the liabilities assumed, any noncontrolling interest in the acquiree and the goodwill acquired. SFAS 141R also establishes disclosure requirements which will enable users to evaluate the nature and financial effects of the business combination. This standard is effective for fiscal years beginning after December 15, 2008 and early adoption is prohibited. The adoption did not have an impact on the Company’s results of operations or financial position.

In February 2007, the FASB issued SFAS No. 159, “The Fair Value Option for Financial Assets and Financial Liabilities-including an amendment of FASB Statement No. 115” (“SFAS 159”). SFAS 159 allows an entity the irrevocable option to elect fair value for the initial and subsequent measurement of certain financial assets and liabilities under an instrument-by-instrument election. Subsequent measurements for the financial assets and liabilities an entity elects to measure at fair value will be recognized in the results of operations. SFAS 159 also establishes additional disclosure requirements. This standard is effective for fiscal years beginning after November 15, 2007. Effective for fiscal year 2008, the Company has adopted the provisions of SFAS 159. The adoption did not have an impact on the Company’s results of operations and financial position.

In September 2006, the FASB issued SFAS No. 157, “Fair Value Measurements” (“SFAS 157”). SFAS 157 addresses how companies should measure fair value when they are required to use a fair value measure for recognition or disclosure purposes under generally accepted accounting principles. As a result of SFAS 157 there is now a common definition of fair value to be used throughout GAAP. The FASB believes that the new standard will make the measurement of fair value more consistent and comparable and improve disclosures about those measures. The provisions of SFAS 157 were to be effective for fiscal years beginning after November 15, 2007. On February 6, 2008, the FASB agreed to defer the effective date of SFAS 157 for one year for certain nonfinancial assets and nonfinancial liabilities, except those that are recognized or disclosed at fair value in the financial statements on a recurring basis (at least annually). Effective for fiscal 2008, the Company has adopted SFAS 157 except as it applies to those nonfinancial assets and nonfinancial liabilities. The adoption did not have an impact on the Company’s results of operations and financial position.

2. Management’s Discussion and Analysis of Financial Condition and Results of Operations

The following discussion and analysis of our consolidated financial condition and results of operations should be read in conjunction with the financial statements of the Company and notes thereto included elsewhere in this quarterly report. In this quarterly report, unless the context otherwise requires, references to “we,” “us,” and “our” mean the Company, together with its subsidiaries, on a consolidated basis.

Executive Overview

The economic slowdown in the U.S. and other major world economies continues to negatively impact our results of operations. As expected, our results for the period reflect the difficult operating environment. The global recession has caused significant pressure on discretionary consumer spending worldwide. Our markets continue to experience an increased number of business closures, sharp declines in housing starts and tourism, and a general slowdown in consumer spending.

Container volumes during the quarter and six months ended June 21, 2009 were impacted by the overall market conditions. In addition, lower volume, including a decline in exports, affected terminal services revenue. Operating revenue decreased as a result of lower container volumes along with lower fuel surcharges, offset by unit revenue improvements resulting from general rate increases and cargo mix upgrades. General rate increases are typically implemented in order to help offset contractual expense increases.

The decrease in operating expense during the quarter and six months ended June 21, 2009 is primarily due to lower fuel prices, partially offset by an increase in selling, general and administrative expenses due to the Department of Justice antitrust investigation and related legal proceedings, including the potential settlement of the Puerto Rico MDL litigation.


	Quarters Ended						Six Months Ended
	June 21,			June 22,			June 21,			June 22,
	2009			2008			2009			2008
	($ in thousands)
Operating revenue	$	278,484		$	330,958		$	550,835		$	636,905
Operating expense		289,691			314,274			562,860			608,620


Operating (loss) income	$	(11,207	)	$	16,684		$	(12,025	)	$	28,285


Operating ratio		104.0	%		95.0	%		102.2	%		95.6	%
Revenue containers (units)		64,176			71,169			125,653			137,399
Average unit revenue	$	3,686		$	3,959		$	3,713		$	3,934

We believe that in addition to GAAP based financial information, earnings before net interest expense, income taxes, depreciation, and amortization (“EBITDA”) is a meaningful disclosure for the following reasons: (i) EBITDA is a component of the measure used by our Board of Directors and management team to evaluate our operating performance, (ii) the Senior Credit Facility contains covenants that require the Company to maintain certain interest expense coverage and leverage ratios, which contain EBITDA as a component, and our management team uses EBITDA to monitor compliance with such covenants, (iii) EBITDA is a component of the measure used by our management team to make day-to-day operating decisions, (iv) EBITDA is a component of the measure used by our management to facilitate internal comparisons to competitors’ results and the marine container shipping and logistics industry in general and (v) the payment of discretionary bonuses to certain members of our management is contingent upon, among other things, the satisfaction by the Company of certain targets, which contain EBITDA as a component. We acknowledge that there are limitations when using EBITDA. EBITDA is not a recognized term under GAAP and does not purport to be an alternative to net income as a measure of operating performance or to cash flows from operating activities as a measure of liquidity. Additionally, EBITDA is not intended to be a measure of free cash flow for management’s discretionary use, as it does not consider certain cash requirements such as tax payments and debt service requirements. Because all companies do not use identical calculations, this presentation of EBITDA may not be comparable to other similarly titled measures of other companies. A reconciliation of net income to EBITDA is included below:


	Quarters Ended					Six Months Ended
				June 22,					June 22,
	June 21,			2008		June 21,			2008
	2009			(As Adjusted)		2009			(As Adjusted)
	(in thousands)
Net (loss) income	$	(31,083	)	$	5,834	$	(41,035	)	$	6,559
Interest expense, net		9,254			10,353		18,686			21,513
Income tax expense		10,561			493		10,264			212
Depreciation and amortization		14,774			15,950		29,547			31,650


EBITDA	$	3,506		$	32,630	$	17,462		$	59,934

General

The Company has two principal businesses referred to as Horizon Lines, LLC (“Horizon Lines”) and Horizon Logistics Holdings, LLC (“Horizon Logistics”). Through Horizon Lines, we believe that we are the nation’s leading Jones Act container shipping and integrated logistics company, accounting for approximately 38% of total U.S. marine container shipments from the continental U.S. to Alaska, Puerto Rico and Hawaii, constituting the three non-contiguous Jones Act markets, and to Guam and Micronesia. Under the Jones Act, all vessels transporting cargo between covered locations must, subject to limited exceptions, be built in the U.S., registered under the U.S. flag, manned by predominantly U.S. crews, and owned and operated by U.S.-organized companies that are controlled and 75% owned by U.S. citizens. We own or lease 21 vessels, 16 of which are fully qualified Jones Act vessels, and approximately 19,300 cargo containers. We also provide comprehensive shipping and logistics offerings in our markets, including rail, trucking, distribution, and non-vessel operating common carrier (“NVOCC”) services. We have long-term access to terminal facilities in each of our ports, operating our terminals in Alaska, Hawaii, and Puerto Rico and contracting for terminal services in the six ports in the continental U.S. and in the ports in Guam, Yantian, Xiamen and Kaohsiung.

History

Our long operating history dates back to 1956, when Sea-Land pioneered the marine container shipping industry and established our business. In 1958, we introduced container shipping to the Puerto Rico market, and in 1964 we pioneered container shipping in Alaska with the first year-round scheduled vessel service. In 1987, we began providing container shipping services between the U.S. west coast and Hawaii and Guam through our acquisition from an existing carrier of all of its vessels and certain other assets that were already serving that market. Today, as the only Jones Act vessel operator with one integrated organization serving Alaska, Hawaii, and Puerto Rico, we are uniquely positioned to serve customers requiring shipping and logistics services in more than one of these markets.

Critical Accounting Policies

We prepare our financial statements in conformity with accounting principles generally accepted in the United States of America. The preparation of our financial statements requires us to make estimates and assumptions in the reported amounts of revenues and expenses during the reporting period and in reporting the amounts of assets and liabilities, and disclosures of contingent assets and liabilities at the date of our financial statements. Since many of these estimates and assumptions are based upon future events which cannot be determined with certainty, the actual results could differ from these estimates.

We believe that the application of our critical accounting policies, and the estimates and assumptions inherent in those policies, are reasonable. These accounting policies and estimates are periodically reevaluated and adjustments are made when facts or circumstances dictate a change. Historically, we have found the application of accounting policies to be appropriate and actual results have not differed materially from those determined using necessary estimates. There have been no material changes to the Company’s critical accounting policies during the six months ended June 21, 2009. The critical accounting policies can be found in the Company’s Annual Report on Form 10-K for the fiscal year ended December 21, 2008 as filed with the SEC.

Seasonality

Our container volumes are subject to seasonal trends common in the transportation industry. Financial results in the first quarter are normally lower due to reduced loads during the winter months. Volumes typically build to a peak in the third quarter and early fourth quarter, which generally results in higher revenues and improved margins.

Results of Operations

Operating Revenue Overview

We derive our revenue primarily from providing comprehensive shipping and logistics services to and from the continental U.S. and Alaska, Puerto Rico, Hawaii and Guam. We charge our customers on a per load basis and price our services based primarily on the length of inland and ocean cargo transportation hauls, type of cargo, and other requirements such as shipment timing and type of container. In addition, we assess fuel surcharges on a basis consistent with industry practice and at times may incorporate these surcharges into our basic transportation rates. There is occasionally a timing disparity between volatility in our fuel costs and related adjustments to our fuel surcharges (or the incorporation of adjusted fuel surcharges into our base transportation rates) that may result in variances in our fuel recovery.

Over 85% of our revenue is generated from our shipping and logistics services in markets where the marine trade is subject to the Jones Act or other U.S. maritime laws. The balance of our revenue is derived from (i) vessel loading and unloading services that we provide for vessel operators at our terminals, (ii) agency services that we provide for third-party shippers lacking administrative presences in our markets, (iii) vessel space charter income from third-parties in trade lanes not subject to the Jones Act, (iv) management of vessels owned by third-parties, (v) warehousing services for third-parties, (vi) NVOCC operations, and (vii) other non-transportation services.

As used in this Form 10-Q, the term “revenue containers” refers to containers that are transported for a charge, as opposed to empty containers.

Cost of Services Overview

Our cost of services consist primarily of marine operating costs, inland transportation costs, vessel operating costs, land costs and rolling stock rent. Our marine operating costs consist of stevedoring, port charges, wharfage and various other costs to secure vessels at the port and to load and unload containers to and from vessels. Our inland transportation costs consist primarily of the costs to move containers to and from the port via rail, truck or barge and transportation costs related to our logistics services. Our vessel operating costs consist primarily of vessel fuel costs, crew payroll costs and benefits, vessel maintenance costs, space charter costs, vessel insurance costs and vessel rent. We view our vessel fuel costs as subject to potential fluctuation as a result of changes in unit prices in the fuel market. Our land costs consist primarily of maintenance, yard and gate operations, warehousing operations and terminal overhead in the terminals in which we operate. Rolling stock rent consists primarily of rent for street tractors, yard equipment, chassis, gensets and various dry and refrigerated containers.

Quarter Ended June 21, 2009 Compared with the Quarter Ended June 22, 2008

Horizon Lines Segment

Horizon Lines provides container shipping services and terminal services primarily in the U.S. domestic Jones Act trades, operating a fleet of 21 U.S.-flag containerships and five port terminals linking the continental U.S. with Alaska, Hawaii, Guam, Micronesia, Asia and Puerto Rico. The amounts presented below exclude all intercompany transactions.


	Quarters Ended
	June 21,			June 22,
	2009			2008			Change			% Change
	($ in thousands)
Operating revenue	$	270,187		$	322,810		$	(52,623	)		(16.3	)%
Operating expense:
Vessel		82,501			109,944			(27,443	)		(25.0	)%
Marine		49,266			50,934			(1,668	)		(3.3	)%
Inland		42,818			53,015			(10,197	)		(19.2	)%
Land		33,868			36,369			(2,501	)		(6.9	)%
Rolling stock rent		9,641			10,830			(1,189	)		(11.0	)%


Cost of services		218,094			261,092			(42,998	)		(16.5	)%
Depreciation and amortization		11,067			11,297			(230	)		(2.0	)%
Amortization of vessel dry-docking		3,609			4,400			(791	)		(18.0	)%
Selling, general and administrative		25,848			27,455			(1,607	)		(5.9	)%
Settlement of class action lawsuit		20,000			—			20,000			100.0	%
Impairment charge		659			—			659			100.0	%
Miscellaneous (income) expense, net		(299	)		831			(1,130	)		(136.0	)%


Total operating expense		278,978			305,075			(26,097	)		(8.6	)%


Operating (loss) income	$	(8,791	)	$	17,735		$	(26,526	)		(149.6	)%


Operating ratio		103.6	%		94.5	%					9.1	%
Revenue containers (units)		64,176			71,169			(6,993	)		(9.8	)%
Average unit revenue	$	3,686		$	3,959		$	(273	)		(6.9	)%

Operating Revenue. Horizon Lines operating revenue decreased $52.6 million, or 16.3%, and accounted for approximately 97.0% of consolidated operating revenue. This revenue decrease can be attributed to the following factors (in thousands):


Bunker and intermodal fuel surcharges included in rates decline	$	(27,811	)
Revenue container volume decrease		(27,688	)
Non-transportation services decrease		(6,353	)
General rate increases		9,229


Total operating revenue decrease	$	(52,623	)

The revenue container volume declines are primarily due to weak market conditions in all of our tradelanes and are partially offset by general rate increases. Bunker and intermodal fuel surcharges, which are included in our transportation revenue, accounted for approximately 9.3% of total revenue in the quarter ended June 21, 2009 and approximately 16.4% of total revenue in the quarter ended June 22, 2008. We adjusted our bunker and intermodal fuel surcharges throughout 2008 and in the first half of 2009 as a result of fluctuations in the cost of bunker fuel for our vessels, in addition to diesel fuel fluctuations passed on to us by our truck, rail, and barge service providers. Fuel surcharges are evaluated regularly as the price of fuel fluctuates, and we may at times incorporate these surcharges into our base transportation rates that we charge. The decrease in non-transportation revenue is primarily due to lower space charter revenue resulting from a decrease in fuel surcharges and a decrease in terminal services.

Cost of Services. The $43.0 million reduction in cost of services is primarily due to lower fuel costs as a result of a decrease in fuel prices and a decrease in variable costs as a result of lower container volumes.

Vessel expense, which is not primarily driven by revenue container volume, decreased $27.4 million for the quarter ended June 21, 2009 compared to the quarter ended June 22, 2008. This decrease can be attributed to the following factors (in thousands):


Vessel fuel costs decrease	$	(26,657	)
Labor and other vessel operating decrease		(613	)
Vessel lease expense decrease		(173	)


Total vessel expense decrease	$	(27,443	)

The $26.7 million decrease in fuel costs is comprised of a $21.7 million decrease due to fuel prices and a $4.9 million decrease due to lower daily consumption, offset by slightly more operating days in our Puerto Rico tradelane. The decrease in labor and other vessel operating expense is due to a reduction in our space charter expense and an increase in the expense accrual for voyages in progress.

Marine expense is comprised of the costs incurred to bring vessels into and out of port, and to load and unload containers. The types of costs included in marine expense are stevedoring and associated benefits, pilotage fees, tug fees, government fees, wharfage fees, dockage fees, and line handler fees. The $1.7 million decrease in marine expense during quarter ended June 21, 2009 was primarily due to lower container volumes, partially offset by contractual rate increases.

Inland expense decreased to $42.8 million for the quarter ended June 21, 2009 compared to $53.0 million during the quarter ended June 22, 2008. The $10.2 million decrease in inland expense is primarily due to lower fuel costs and the reduction in inland expense related to lower container volumes.

Land expense is comprised of the costs included within the terminal for the handling, maintenance, and storage of containers, including yard operations, gate operations, maintenance, warehouse, and terminal overhead.


	Quarters Ended
	June 21,		June 22,
	2009		2008		% Change
	(in thousands)
Land expense:
Maintenance	$	12,086	$	13,549		(10.8	)%
Terminal overhead		13,112		14,043		(6.6	)%
Yard and gate		6,853		6,585		4.1	%
Warehouse		1,817		2,192		(17.1	)%


Total land expense	$	33,868	$	36,369		(6.9	)%

Non-vessel related maintenance expenses decreased primarily due to a decrease in overall repair expenses and lower fuel costs. The decrease in overall repair expenses is associated with lower volumes and our cost control efforts. Terminal overhead decreased primarily due to lower utilities expense and lower compensation costs as a result of the reduction in workforce, partially offset by increased facility rent due to the relocation of the Long Beach, CA offices. Yard and gate expense is comprised of the costs associated with moving cargo into and out of the terminal facility and the costs associated with the storage of equipment and revenue loads in the terminal facility. Yard and gate expenses increased primarily due to rate increases in the monitoring of refrigerated containers.

Rolling stock expense decreased $1.2 million or 11.0% during the quarter ended June 21, 2009 as compared to the quarter ended June 22, 2008. This decrease is primarily due to the off-hire of certain leased container units and increased efficiencies in association with our cost control efforts.

Depreciation and Amortization. Depreciation and amortization was $11.1 million during the quarter ended June 21, 2009 compared to $11.3 million during the quarter ended June 22, 2008. The decrease in depreciation-owned vessels is due to certain vessel assets becoming fully depreciated and no longer subject to depreciation expense.


	Quarters Ended
	June 21,		June 22,
	2009		2008		% Change
	(in thousands)
Depreciation and amortization:
Depreciation—owned vessels	$	2,227	$	2,554		(12.8	)%
Depreciation and amortization—other		3,765		3,665		2.7	%
Amortization of intangible assets		5,075		5,078		(0.1	)%


Total depreciation and amortization	$	11,067	$	11,297		(2.0	)%


Amortization of vessel dry-docking	$	3,609	$	4,400		(18.0	)%

Amortization of Vessel Dry-docking. Amortization of vessel dry-docking was $3.6 million during the quarter ended June 21, 2009 compared to $4.4 million for the quarter ended June 22, 2008. Amortization of vessel dry-docking fluctuates based on the timing of dry-dockings, the number of dry-dockings that occur during a given period, and the amount of expenditures incurred during the dry-dockings. Dry-dockings generally occur every two and a half years and historically we have dry-docked approximately six vessels per year.

Selling, General and Administrative. Selling, general and administrative costs decreased to $25.8 million for the quarter ended June 21, 2009 compared to $27.5 million for the quarter ended June 22, 2008, a decrease of $1.6 million or 5.9%. This decrease is comprised of a $1.8 million decline in consultant fees incurred during the second quarter of 2008 related to our process re-engineering initiative, $1.3 million related to the reduction in workforce, and $0.2 million decrease in stock-based compensation expense, offset by an increase of $1.6 million of legal and professional fees expenses related to the Department of Justice antitrust investigation and related legal proceedings.

Settlement of Class Action Lawsuit. On June 11, 2009, we entered into a settlement agreement with the plaintiffs in the Puerto Rico MDL litigation. Under the settlement agreement, which is subject to Court approval, we have agreed to pay $20.0 million and to certain base-rate freezes, to resolve claims for alleged antitrust violations in the Puerto Rico tradelane.

Impairment Charge. Impairment charge of $0.7 million included an additional write-down related to our spare vessels.

Miscellaneous Expense, Net. Miscellaneous expense, net decreased $1.1 million during the quarter ended June 21, 2009 compared to the quarter ended June 22, 2008 primarily as a result of higher gains on the sale of assets and lower bad debt expense during 2009.

Horizon Logistics Segment

Horizon Logistics manages integrated logistics offerings, including rail, trucking, warehousing, distribution, and NVOCC services. The amounts presented below exclude all intercompany transactions.


	Quarters Ended
	June 21,			June 22,
	2009			2008			Change			% Change
	(in thousands)
Operating revenue	$	8,297		$	8,148		$	149			1.8	%
Operating expense:
Inland		6,433			6,097			336			5.5	%
Land		1,520			642			878			136.8	%
Rolling stock rent		290			103			187			181.6	%


Cost of services		8,243			6,842			1,401			20.5	%
Depreciation and amortization		98			253			(155	)		(61.3	)%
Selling, general and administrative		2,156			2,182			(26	)		(1.2	)%
Restructuring charge		213			—			213			100.0	%
Miscellaneous expense (income), net		3			(78	)		81			103.8	%


Total operating expense		10,713			9,199			1,514			16.5	%


Operating loss	$	(2,416	)	$	(1,051	)	$	(1,365	)		(130.0	)%

Operating Revenue. Horizon Logistics operating revenue accounted for approximately 3.0% of consolidated operating revenue. Revenue of $8.3 million during the quarter ended June 21, 2009 was 1.8% higher as compared to the quarter ended June 22, 2008. The increase in revenue is due to the expansion of services provided by the logistics segment, including our NVOCC and brokerage operations, was offset by a decrease in our expedited logistics service offering.

Cost of Services. Cost of services increased to $8.2 million for the quarter ended June 21, 2009 compared to $6.8 million for the quarter ended June 22, 2008, an increase of $1.4 million. The increase in cost of services is primarily due to the above mentioned increase in service offerings combined with a change in mix from higher margin expedited deliveries to lower margin service offerings as a result of the loss of a major expedited logistics customer during the fourth quarter of 2008.

Depreciation and Amortization. Depreciation and amortization was $0.1 million during the quarter ended June 21, 2009 compared to $0.3 million for the quarter ended June 22, 2008. The decrease in amortization is due to the impairment of the customer relationship intangible asset during the fourth quarter of 2008.


	Quarters Ended
	June 21,		June 22,
	2009		2008		% Change
	(in thousands)
Depreciation and amortization:
Depreciation and amortization—other	$	16	$	9		77.8	%
Amortization of intangible assets		82		244		(66.4	)%


Total depreciation and amortization	$	98	$	253		(61.3	)%

Selling, General and Administrative. Selling, general and administrative costs of $2.2 million for the quarter ended June 21, 2009 was flat as compared to the quarter ended June 22, 2008.

Restructuring Charge. Restructuring costs of $0.2 million included severance costs related to the elimination of certain positions in connection with the loss of a major customer and a reorganization within the logistics segment.

Unallocated Expenses

Interest Expense, Net. Interest expense, net decreased to $9.3 million for the quarter ended June 21, 2009 compared to $10.4 million for the quarter ended June 22, 2008, a decrease of $1.1 million or 10.6%. This decrease is a result of a lower outstanding balance on the revolving line of credit during the second quarter of 2009 combined with lower interest rates payable on the outstanding debt.

Income Tax Expense. The effective tax rate for the quarters ended June 21, 2009 and June 22, 2008 was (51.5)% and 7.8%, respectively. During the second quarter of 2009, we determined that it was unclear as to the timing of when we will generate sufficient taxable income to realize our deferred tax assets. Accordingly, we recorded a valuation allowance of $13.5 million against our deferred tax assets, which resulted in a $10.5 income tax provision. Although we have recorded a valuation allowance against our deferred tax assets, it does not affect our ability to utilize our deferred tax assets to offset future taxable income. Until such time that we determine it is more likely than not that we will generate sufficient taxable income to realize our deferred tax assets, income tax benefits associated with future period losses will be fully reserved. As such, the Company’s tax rate is expected to effectively be 0% during those periods.

Six Months Ended June 21, 2009 Compared with the Six Months Ended June 22, 2008

Horizon Lines Segment


	Six Months Ended
	June 21,			June 22,
	2009			2008			Change			% Change
	($ in thousands)
Operating revenue	$	534,491		$	621,378		$	(86,887	)		(14.0	)%
Operating expense:
Vessel		167,318			213,377			(46,059	)		(21.6	)%
Marine		98,659			100,139			(1,480	)		(1.5	)%
Inland		86,319			100,141			(13,822	)		(13.8	)%
Land		68,882			71,570			(2,688	)		(3.8	)%
Rolling stock rent		18,555			22,837			(4,282	)		(18.8	)%


Cost of services		439,733			508,064			(68,331	)		(13.4	)%
Depreciation and amortization		21,945			22,349			(404	)		(1.8	)%
Amortization of vessel dry-docking		7,407			8,775			(1,368	)		(15.6	)%
Selling, general and administrative		51,277			50,485			792			1.6	%
Settlement of class action lawsuit		20,000			—			20,000			100.0	%
Impairment charge		659			—			659			100.0	%
Restructuring charge		753			—			753			100.0	%
Miscellaneous (income) expense, net		(113	)		1,265			(1,378	)		(108.9	)%


Total operating expense		541,661			590,938			(49,277	)		(8.3	)%


Operating (loss) income	$	(7,170	)	$	30,440		$	(37,610	)		(123.6	)%


Operating ratio		101.3	%		95.1	%					6.2	%
Revenue containers (units)		125,653			137,399			(11,746	)		(8.5	)%
Average unit revenue	$	3,713		$	3,934		$	(221	)		(5.6	)%

Operating Revenue. Horizon Lines operating revenue decreased $86.9 million, or 14.0%, and accounted for approximately 97.0% of consolidated operating revenue. This revenue decrease can be attributed to the following factors (in thousands):


Bunker and intermodal fuel surcharges included in rates decline	$	(47,951	)
Revenue container volume decrease		(46,209	)
Non-transportation services decrease		(14,990	)
General rate increases		22,263


Total operating revenue decrease	$	(86,887	)

The revenue container volume declines are primarily due to weak market conditions in all of our tradelanes and are partially offset by general rate increases. Bunker and intermodal fuel surcharges, which are included in our transportation revenue, accounted for approximately 9.4% of total revenue in the six months ended June 21, 2009 and approximately 15.8% of total revenue in the six months ended June 22, 2008. We adjusted our bunker and intermodal fuel surcharges throughout 2008 and in the first half of 2009 as a result of fluctuations in the cost of bunker fuel for our vessels, in addition to diesel fuel fluctuations passed on to us by our truck, rail, and barge service providers. Fuel surcharges are evaluated regularly as the price of fuel fluctuates, and we may at times incorporate these surcharges into our base transportation rates that we charge. The decrease in non-transportation revenue is primarily due to lower space charter revenue resulting from a decrease in fuel surcharges and a decrease in terminal services.

Cost of Services. The $68.3 million reduction in cost of services is primarily due to lower fuel costs as a result of a decrease in fuel prices and a decrease in inland costs as a result of lower container volumes.

Vessel expense, which is not primarily driven by revenue container volume, decreased $46.1 million for the six months ended June 21, 2009 compared to the six months ended June 22, 2008. This decrease can be attributed to the following factors (in thousands):


Vessel fuel costs decline	$	(48,909	)
Vessel lease expense decrease		(128	)
Labor and other vessel operating increase		2,978


Total vessel expense decrease	$	(46,059	)

The $48.9 million decrease in fuel costs is comprised of a $45.8 million decrease due to fuel prices and a $3.1 million decrease due to lower daily consumption offset by an increase of fuel consumption in our Puerto Rico tradelane as a result of higher active vessel operating days. The increase in labor and other vessel operating expense is due to an increase in our insurance premiums related to our protection and indemnity policies and additional operating expenses associated with four dry-dockings during the first six months of 2009. We continue to incur labor expenses associated with the vessel in dry-dock while continuing to incur expenses associated with the spare vessel deployed to serve as dry-dock relief.

Marine expense is comprised of the costs incurred to bring vessels into and out of port, and to load and unload containers. The types of costs included in marine expense are stevedoring and associated benefits, pilotage fees, tug fees, government fees, wharfage fees, dockage fees, and line handler fees. Marine expense of $98.7 million for the six months ended June 21, 2009 was 1.5% lower as compared to the six months ended June 22, 2008 as the decrease in marine expense related to lower container volumes was partially offset by contractual rate increases.

Inland expense decreased to $86.3 million for the six months ended June 21, 2009 compared to $100.1 million during the six months ended June 22, 2008. The $13.8 million decrease in inland expense is primarily due to lower fuel costs and lower container volumes.


	Six Months Ended
	June 21,		June 22,
	2009		2008		% Change
	(in thousands)
Land expense:
Maintenance	$	24,341	$	26,112		(6.8	)%
Terminal overhead		26,551		27,926		(4.9	)%
Yard and gate		14,431		13,476		7.1	%
Warehouse		3,559		4,056		(12.3	)%


Total land expense	$	68,882	$	71,570		(3.8	)%

Non-vessel related maintenance expenses decreased primarily due to a decrease in overall repair expenses and lower fuel costs. The decrease in overall repair expenses is associated with lower volumes and our cost control efforts. Terminal overhead decreased primarily due to lower utilities expense and lower compensation costs as a result of the reduction in workforce, partially offset by increased facility rent as a result of the relocation of the Long Beach, CA offices. Yard and gate expense is comprised of the costs associated with moving cargo into and out of the terminal facility and the costs associated with the storage of equipment and revenue loads in the terminal facility. Yard and gate expenses increased primarily as a result of $0.2 million due to a one-time stevedoring revenue opportunity, a $0.2 million write down of certain prepaid capital expenditures related to our San Juan, Puerto Rico port redevelopment project as a result of the bankruptcy filing of the general contractor, and $0.2 million of rate increases in the monitoring of refrigerated containers.

Rolling stock expense decreased $4.3 million or 18.8% during the six months ended June 21, 2009 as compared to the six months ended June 22, 2008. This decrease is primarily due to the off-hire of certain leased container units and increased efficiencies in association with our cost control efforts.

Depreciation and Amortization. Depreciation and amortization was $21.9 million during the six months ended June 21, 2009 compared to $22.3 million during the six months ended June 22, 2008. The decrease in depreciation-owned vessels is due to certain vessel assets becoming fully depreciated and no longer subject to depreciation expense.


	Six Months Ended
	June 21,		June 22,
	2009		2008		% Change
	(in thousands)
Depreciation and amortization:
Depreciation—owned vessels	$	4,432	$	5,050		(12.2	)%
Depreciation and amortization—other		7,360		7,143		3.0	%
Amortization of intangible assets		10,153		10,156		0.0	%


Total depreciation and amortization	$	21,945	$	22,349		(1.8	)%


Amortization of vessel dry-docking	$	7,407	$	8,775		(15.6	)%

Amortization of Vessel Dry-docking. Amortization of vessel dry-docking was $7.4 million during the six months ended June 21, 2009 compared to $8.8 million for the six months ended June 22, 2008. Amortization of vessel dry-docking fluctuates based on the timing of dry-dockings, the number of dry-dockings that occur during a given period, and the amount of expenditures incurred during the dry-dockings. Dry-dockings generally occur every two and a half years and historically we have dry-docked approximately six vessels per year.

Selling, General and Administrative. Selling, general and administrative costs increased to $51.3 million for the six months ended June 21, 2009 compared to $50.5 million for the six months ended June 22, 2008, an increase of $0.8 million or 1.6%. This increase is comprised of $5.9 million of higher expenses related to the antitrust investigation and related legal proceedings, nearly offset by $3.3 million decrease in consultant fees incurred during the first six months of 2008 related to our process re-engineering initiative, $2.2 million related to the reduction in workforce, and $0.5 million decrease in stock-based compensation expense.

Impairment Charge. Impairment of assets of $0.7 million included an additional write-down related to our spare vessels.

Restructuring Charge. Restructuring costs of $0.8 million included $0.7 million and $0.1 million related to severance costs and other costs associated with our workforce reduction initiative, respectively. The $0.7 million of severance costs included $0.5 million related to the acceleration of certain stock-based compensation awards.

Miscellaneous (Income) Expense, Net. Miscellaneous income, net decreased $1.4 million during the six months ended June 21, 2009 compared to the six months ended June 22, 2008 primarily as a result of higher gains on the sale of assets and lower bad debt expense during 2009.

Horizon Logistics Segment


	Six Months Ended
	June 21,			June 22,
	2009			2008			Change			% Change
				(in thousands)
Operating revenue	$	16,343		$	15,528		$	815			5.2	%
Operating expense:
Inland		12,642			11,380			1,262			11.1	%
Land		3,101			1,247			1,854			148.7	%
Rolling stock rent		521			210			311			148.1	%


Cost of services		16,264			12,837			3,427			26.7	%
Depreciation and amortization		195			526			(331	)		(62.9	)%
Selling, general and administrative		4,497			4,285			212			4.9	%
Restructuring costs		249			—			249			100.0	%
Miscellaneous (income) expense, net		(7	)		35			(42	)		(120.0	)%


Total operating expense		21,198			17,683			3,515			19.9	%


Operating loss	$	(4,855	)	$	(2,155	)	$	(2,700	)		(125.3	)%

Operating Revenue. Horizon Logistics operating revenue accounted for approximately 3.0% of consolidated operating revenue. Revenue increased to $16.3 million during the six months ended June 21, 2009 compared to $15.5 million during the six months ended June 22, 2008. This increase is primarily due to the expansion of services provided by the logistics segment, including operations as a NVOCC, partially offset by a decrease in our expedited logistics service offering.

Cost of Services. Cost of services increased to $16.2 million for the six months ended June 21, 2009 compared to $12.8 million for the six months ended June 22, 2008, an increase of $3.4 million. The increase in cost of services is primarily due to the above mentioned increase in service offerings combined with a change in mix from higher margin expedited deliveries to lower margin service offerings as a result of the loss of a major customer during the fourth quarter of 2008.

Depreciation and Amortization. Depreciation and amortization was $0.2 million during the six months ended June 21, 2009 compared to $0.5 million for the six months ended June 22, 2008. The decrease in amortization is due to the impairment of the customer relationship intangible asset during the fourth quarter of 2008.


	Six Months Ended
	June 21,		June 22,
	2009		2008		% Change
	(in thousands)
Depreciation and amortization:
Depreciation and amortization—other	$	33	$	18		83.3	%
Amortization of intangible assets		162		508		(68.1	)%


Total depreciation and amortization	$	195	$	526		(62.9	)%

Selling, General and Administrative. Selling, general and administrative costs increased to $4.5 million for the six months ended June 21, 2009 compared to $4.3 million for the six months ended June 22, 2008, an increase of $0.2 million. This increase is due to an increase in sales force headcount additions subsequent to the first six months of 2008.

Restructuring Charge. Restructuring costs of $0.2 million included severance costs related to our workforce reduction initiative and to the elimination of certain positions in connection with the loss of a major customer.

Unallocated Expenses

Interest Expense, Net. Interest expense, net decreased to $18.7 million for the six months ended June 21, 2009 compared to $21.5 million for the six months ended June 22, 2008, a decrease of $2.8 million or 13.0%. This decrease is a result of a lower outstanding balance on the revolving line of credit during the first six months of 2009 combined with lower interest rates on the outstanding debt.

Income Tax Expense. The effective tax rate for the six months ended June 21, 2009 and June 22, 2008 was (33.4)% and 3.1%, respectively. During the second quarter of 2009, we determined that it was unclear as to the timing of when we will generate sufficient taxable income to realize our deferred tax assets. Accordingly, we recorded a valuation allowance of $13.5 million against our deferred tax assets, which resulted in a $10.5 million income tax provision. Although we have recorded a valuation allowance against our deferred tax assets, it does not affect our ability to utilize our deferred tax assets to offset future taxable income. Until such time that we determine it is more likely than not that we will generate sufficient taxable income to realize ours deferred tax assets, income tax benefits associated with future period losses will be fully reserved. As such, the Company’s tax rate is expected to effectively be 0% during those periods.

Liquidity and Capital Resources

Principal sources of funds have been (i) earnings before non-cash charges and (ii) borrowings under debt arrangements. Principal uses of funds have been (i) capital expenditures on our container fleet, terminal operating equipment, owned and leased vessel fleet, and information technology systems, (ii) vessel dry-docking expenditures, (iii) working capital consumption, (iv) principal and interest payments on indebtedness, (v) dividend payments, (vi) acquisitions, and (vii) share repurchases. Cash totaled $3.7 million at June 21, 2009. As of June 21, 2009, $71.9 million was available for borrowing under the revolving credit facility, after taking into account $145.0 million outstanding under the revolver and $8.1 million utilized for outstanding letters of credit.

Operating Activities

Net cash used in operating activities was $7.2 million for the six months ended June 21, 2009 compared to net cash provided by operating activities of $16.6 million for the six months ended June 22, 2008, a decrease of $23.8 million. The decrease in cash used in operating activities is primarily due to the following (in thousands):


Earnings adjusted for non-cash charges	$	(38,060	)
Increase in payments related to Department of Justice antitrust investigation and related legal proceedings		(8,388	)
Increase in payments related to restructuring and impairment of assets		(3,832	)
Increase in payments related to dry-dockings		(2,049	)
Increase in vessel payments in excess of accrual		(691	)
Increase in accrual for settlement of class action lawsuit		20,000
Other changes in working capital, net		9,250


	$	(23,770	)

Investing Activities

Net cash used in investing activities was $6.3 million for the six months ended June 21, 2009 compared to $7.5 million for the six months ended June 22, 2008. The reduction is primarily related to a $0.6 increase in proceeds from the sale of assets, a $0.3 million decrease in capital spending, and $0.2 million decrease in the purchases of businesses.

Financing Activities

Net cash provided by financing activities during the six months ended June 21, 2009 was $11.7 million compared to $8.6 million for the six months ended June 22, 2008. The net cash provided by financing activities during the six months ended June 21, 2009 included $21.7 million, net of repayments, borrowed under the Senior Credit Facility as compared to $44.7 million during the six months ended June 22, 2008. In addition, during the six months ended June 21, 2009, we paid $3.4 million in financing costs related to fees associated with the amendment to the Senior Credit Facility.

On November 19, 2007, our Board of Directors authorized us to commence a stock repurchase program to buy back up to $50.0 million of our common stock. The program allowed us to purchase shares through open market repurchases and privately negotiated transactions at a price of $26.00 per share or less until the program’s expiration on December 31, 2008. We completed the share repurchase program by acquiring a total of 2,800,200 shares at a total cost of $50.0 million, including the purchase of 1,627,500 shares at a total cost of $29.3 million during the six months ended June 22, 2008. Although we do not currently intend to repurchase additional shares, we will continue to evaluate market conditions and may, subject to approval by our Board of Directors, repurchase additional shares of our common stock in the future.

Capital Requirements and Commitments

Our current and future capital needs relate primarily to debt service, our vessel fleet, and providing for other necessary equipment acquisitions, including terminal cranes in Anchorage, Alaska. Cash to be used for investing activities, including purchases of property and equipment for the next twelve months is expected to total approximately $13.0-$16.0 million. Such capital expenditures will include terminal infrastructure and equipment, continued redevelopment of our San Juan, Puerto Rico terminal, and vessel regulatory and maintenance initiatives. In addition, expenditures for vessel dry-docking payments are estimated to be $24.0-$26.0 million for the next twelve months.

On June 11, 2009, we entered into a settlement agreement with the plaintiffs in the Puerto Rico MDL litigation. Under the settlement agreement, which is subject to Court approval, we have agreed to pay $20.0 million and to certain base-rate freezes, to resolve claims for alleged antitrust violations in the Puerto Rico tradelane. As of the date hereof, we have paid $5.0 million into an escrow account pursuant to the terms of the settlement agreement and will be required to pay $5.0 million within 90 days after preliminary approval of the settlement agreement by the district court and $10.0 million within five business days after final approval of the settlement agreement by the district court.

The base-rate freeze component of the settlement agreement provides that class members who have contracts in the Puerto Rico trade with us as of the effective date of the settlement would have the option, in lieu of receiving cash, to have their “base rates” frozen for a period of two years. The base-rate freeze would run for two years from the expiration of the contract in effect on the effective date of the settlement. All class members would be eligible to share in the $20.0 million cash component, but only our contract customers would be eligible to elect the base-rate freeze in lieu of receiving cash. We have the right to terminate the settlement agreement under certain circumstances.

Eight of our vessels, the Horizon Anchorage, Horizon Tacoma, Horizon Kodiak, Horizon Hunter, Horizon Hawk, Horizon Eagle, Horizon Falcon and Horizon Tiger are leased, or chartered, under charters that are due to expire in January 2015 for the Horizon Anchorage, Horizon Tacoma and Horizon Kodiak, in 2018 for the Horizon Hunter and in 2019 for the Horizon Hawk, Horizon Eagle, Horizon Falcon and Horizon Tiger. The charters for these vessels permit us to purchase the applicable vessel at the expiration of the charter period for a fair market value specified in the relevant charter that is determined through a pre-agreed appraisal procedure. The fair market values of these vessels at the expiration of their charters cannot be predicted with any certainty.

Long-Term Debt

Senior Credit Facility

On August 8, 2007, we entered into a credit agreement (the “Senior Credit Facility”) secured by substantially all our owned assets. On June 11, 2009, the Senior Credit Facility was amended reduce the size of the revolving credit facility from $250.0 million to $225.0 million. The terms of the Senior Credit Facility also provide for a $20.0 million swingline subfacility and a $50.0 million letter of credit subfacility.

The amendment to the Senior Credit Facility is intended to provide us the flexibility that we need to effect the settlement of the Puerto Rico class action litigation and to incur antitrust related litigation expenses. The amendment revises the definition of Consolidated EBITDA by allowing for certain charges, including (i) the Puerto Rico settlement and (ii) litigation expenses related to antitrust litigation matters in an amount not to exceed $25 million in the aggregate and $15 million over a 12-month period, to be added back to the calculation of Consolidated EBITDA. In addition, the Senior Credit Facility was amended to (i) increase the spread over LIBOR and Prime based rates by 150 bps, (ii) increase the range of fees on the unused portion of the commitment, (iii) eliminate the $150 million incremental facility, (iv) modify the definition of Consolidated EBITDA to clarify the term “non-recurring charges”, and (v) incorporate other structural enhancements, including a step-down in the secured leverage ratio and further limitations on the ability to make certain restricted payments. As a result of the amendment to the Senior Credit Facility, we paid $3.4 million in financing costs and recorded a loss on modification of debt of $0.1 million during the quarter ended June 21, 2009.

We have made quarterly principal payments on the term loan of approximately $1.6 million since December 31, 2007, which will continue through September 30, 2009. Quarterly payments will increase to $4.7 million through September 30, 2011, at which point quarterly payments will increase to $18.8 million until final maturity on August 8, 2012. The interest rate payable under the Senior Credit Facility varies depending on the types of advances or loans we select. Borrowings under the Senior Credit Facility bear interest primarily at LIBOR-based rates plus a spread which ranges from 2.75% to 3.5% (LIBOR plus 3.25% as of June 21, 2009) depending our ratio of total secured debt to EBITDA (as defined in the Senior Credit Facility). We also have the option to borrow at Prime plus a spread which ranges from 1.75% to 2.5% (Prime plus 2.25% as of June 21, 2009). The weighted average interest rate at June 21, 2009 was approximately 4.8%, which includes the impact of the interest rate swap (as defined below). We also pay a variable commitment fee on the unused portion of the commitment, ranging from 0.375% to 0.50% (0.50% as of June 21, 2009).

The Senior Credit Facility contains customary affirmative and negative covenants and warranties, including two financial covenants with respect to our leverage and interest coverage ratio and limits the level of dividends and stock repurchases in addition to other restrictions. It also contains customary events of default, subject to grace periods. We were in compliance with all such covenants as of June 21, 2009.

Derivative Instruments

On March 31, 2008, we entered into an Interest Rate Swap Agreement (the “swap”) with Wachovia Bank, National Association (“Wachovia”) in the notional amount of $121.9 million. The swap expires on August 8, 2012. Under the swap, the Company and Wachovia have agreed to exchange interest payments on the notional amount on the last business day of each calendar quarter. We have agreed to pay a 3.02% fixed interest rate, and Wachovia has agreed to pay a floating interest rate equal to the three-month LIBOR rate. The critical terms of the swap agreement and the term loan are the same, including the notional amounts, interest rate reset dates, maturity dates and underlying market indices. The purpose of entering into this swap is to protect us against the risk of rising interest rates by effectively fixing the base interest rate payable related to our term loan.

The swap has been designated as a cash flow hedge of the variability of the cash flows due to changes in LIBOR and has been deemed to be highly effective. Accordingly, we record the fair value of the swap as an asset or liability on our consolidated balance sheet, and any unrealized gain or loss is included in accumulated other comprehensive (loss) income. As of June 21, 2009, we recorded a liability of $3.0 million, included in other long-term liabilities, in the accompanying consolidated balance sheet. We also recorded $1.2 million and $1.1 million in other comprehensive loss for the quarter and six months ended June 21, 2009, respectively. No hedge ineffectiveness was recorded during the quarter and six months ended June 21, 2009. If the hedge was deemed ineffective, or extinguished by either counterparty, any accumulated gains or losses remaining in other comprehensive income would be fully recorded in interest expense during the period.

4.25% Convertible Senior Notes

On August 8, 2007, we issued $330.0 million aggregate principal amount of 4.25% Convertible Senior Notes due 2012 (the “Notes”). The Notes are general unsecured obligations of the Company and rank equally in right of payment with all of our other existing and future obligations that are unsecured and unsubordinated. The Notes bear interest at the rate of 4.25% per annum, which is payable in cash semi-annually on February 15 and August 15 of each year. The Notes mature on August 15, 2012, unless earlier converted, redeemed or repurchased in accordance with their terms prior to August 15, 2012. Holders of the Notes may require us to repurchase the Notes for cash at any time before August 15, 2012 if certain fundamental changes occur.

Each $1,000 of principal of the Notes will initially be convertible into 26.9339 shares of our common stock, which is the equivalent of $37.13 per share, subject to adjustment upon the occurrence of specified events set forth under the terms of the Notes. Upon conversion, we would pay the holder the cash value of the applicable number of shares of our common stock, up to the principal amount of the note. Amounts in excess of the principal amount, if any, may be paid in cash or in stock, at our option. Holders may convert their Notes into our common stock as follows:

	•		Prior to May 15, 2012, if during any calendar quarter, and only during such calendar quarter, if the last reported sale price of our common stock for at least 20 trading days in a period of 30 consecutive trading days ending on the last trading day of the preceding calendar quarter exceeds 120% of the applicable conversion price in effect on the last trading day of the immediately preceding calendar quarter;

	•		During any five business day period prior to May 15, 2012, immediately after any five consecutive trading day period (the “measurement period”) in which the trading price per $1,000 principal amount of notes for each day of such measurement period was less than 98% of the product of the last reported sale price of our common stock on such date and the conversion rate on such date;

	•		If, at any time, a change in control occurs or if we are a party to a consolidation, merger, binding share exchange or transfer or lease of all or substantially all of its assets, pursuant to which the Company’s common stock would be converted into cash, securities or other assets; or

	•		At any time after May 15, 2012 through the fourth scheduled trading day immediately preceding August 15, 2012.

Holders who convert their Notes in connection with a change in control may be entitled to a make-whole premium in the form of an increase in the conversion rate. In addition, upon a change in control, liquidation, dissolution or de-listing, the holders of the Notes may require us to repurchase for cash all or any portion of their Notes for 100% of the principal amount plus accrued and unpaid interest. As of June 21, 2009, none of the conditions allowing holders of the Notes to convert or requiring us to repurchase the Notes had been met. We may not redeem the Notes prior to maturity.

Concurrent with the issuance of the Notes, we entered into note hedge transactions with certain financial institutions whereby if we are required to issue shares of our common stock upon conversion of the Notes, we have the option to receive up to 8.9 million shares of our common stock when the price of our common stock is between $37.13 and $51.41 per share upon conversion, and we sold warrants to the same financial institutions whereby the financial institutions have the option to receive up to 17.8 million shares of our common stock when the price of our common stock exceeds $51.41 per share upon conversion. In June 2008, we obtained approval from our shareholders to increase the number of authorized but unissued shares such that the number of shares available for issuance to the financial institutions increased from 4.6 million to 17.8 million. The separate note hedge and warrant transactions were structured to reduce the potential future share dilution associated with the conversion of Notes. The cost of the note hedge transactions to the Company was approximately $52.5 million, $33.4 million net of tax, and has been accounted for as an equity transaction in accordance with EITF No. 00-19, “Accounting for Derivative Financial Instruments Indexed to, and Potentially Settled in, a Company’s Own Stock” (“EITF No. 00-19”). We received proceeds of $11.9 million related to the sale of the warrants, which has also been classified as equity because the warrants meet all of the equity classification criteria within EITF No. 00-19.

In accordance with SFAS 128, the Notes and the warrants sold in connection with the hedge transactions will have no impact on diluted earnings per share until the price of the Company’s common stock exceeds the conversion price (initially $37.13 per share) because the principal amount of the Notes will be settled in cash upon conversion. Prior to conversion of the Notes or exercise of the warrants, we will include the effect of the additional shares that may be issued if its common stock price exceeds the conversion price, using the treasury stock method. The call options purchased as part of the note hedge transactions are anti-dilutive and therefore will have no impact on earnings per share.

Interest Rate Risk

Our primary interest rate exposure relates to the Senior Credit Facility. As of June 21, 2009, we had outstanding a $115.6 million term loan and $145.0 million under the revolving credit facility, which bear interest at variable rates.

On March 31, 2008, we entered into an Interest Rate Swap Agreement (the “swap”) on our term loan with Wachovia Bank, National Association (“Wachovia”) in the notional amount of $121.9 million. The swap expires on August 8, 2012. Under the swap, the Company and Wachovia have agreed to exchange interest payments on the notional amount on the last business day of each calendar quarter. We have agreed to pay a 3.02% fixed interest rate, and Wachovia has agreed to pay a floating interest rate equal to the three-month LIBOR rate. The critical terms of the swap agreement and the term loan are the same, including the notional amounts, interest rate reset dates, maturity dates and underlying market indices. The purpose of entering into this swap is to protect the Company against the risk of rising interest rates by effectively fixing the base interest rate payable related to our term loan. Interest rate differentials paid or received under the swap are recognized as adjustments to interest expense. We do not hold or issue interest rate swap agreements for trading purposes. In the event that the counter-party fails to meet the terms of the interest rate swap agreement, our exposure is limited to the interest rate differential. On December 31, 2008, Wells Fargo & Co. (“Wells Fargo”) announced that it had completed its merger with Wachovia. As a result of this transaction, Wells Fargo acquired all of Wachovia’s assets and obligations.

Each quarter point change in interest rates would result in a $0.4 million change in annual interest expense on the revolving credit facility.

Ratio of Earnings to Fixed Charges

Our ratio of earnings to fixed charges for the quarter and six months ended June 21, 2009 is as follows (in thousands):


	Quarter Ended			Six Months Ended
	June 21, 2009			June 21, 2009
Pretax loss	$	(20,522	)	$	(30,771	)
Interest expense		9,257			18,712
Rentals		8,704			17,346


Total fixed charges	$	17,961		$	36,058


Pretax earnings plus fixed charges	$	(2,561	)	$	5,287

Ratio of earnings to fixed charges		—			—

For the purposes of calculating the ratio of earnings to fixed charges, earnings represent income before income taxes plus fixed charges. Fixed charges consists of interest expense, including amortization of net discount or premium, and financing costs and the portion of operating rental expense (33%) that management believes is representative of the interest component of rent expense. For the quarter and six months ended June 21, 2009, earnings were insufficient to cover fixed charges by $20.5 million and $30.8 million, respectively.

Recent Accounting Pronouncements

In June 2009, the FASB issued SFAS No. 168 “The FASB Accounting Standards Codification and the Hierarchy of Generally Accepted Accounting Principles” (“SFAS 168”). SFAS 168 establishes the FASB Accounting Standards Codification (“Codification”) as the single source of authoritative GAAP to be applied by nongovernmental entities, except for the rules and interpretive releases of the SEC under authority of federal securities laws, which are sources of authoritative GAAP for SEC registrants. All guidance contained in the Codification carries an equal level of authority. The Codification does not change GAAP. SFAS 168 is effective for interim and annual periods ending on or after September 15, 2009. The adoption of SFAS 168 is not expected to have any impact on the Company’s consolidated results of operations and financial position.

In May 2008, the Financial Accounting Standards Board (“FASB”) issued Staff Position No. APB 14-1, “Accounting for Convertible Debt Instruments that may be Settled in Cash Upon Conversion” (“FSP APB 14-1”). FSP APB 14-1 requires that the liability and equity components of convertible debt instruments that may be settled in cash upon conversion (including partial cash settlement) be separately accounted for in a manner that reflects an issuer’s nonconvertible debt borrowing rate. As a result, the liability component would be recorded at a discount reflecting its below market coupon interest rate, and the liability component would be accreted to its par value over its expected life, with the rate of interest that reflects the market rate at issuance being reflected in the results of operations. This change in methodology affects the calculations of net income and earnings per share, but will not increase our cash interest payments. FSP APB 14-1 is effective for financial statements issued for fiscal years beginning after December 15, 2008, and interim periods within those fiscal years. Retrospective application to all periods presented is required and early adoption is prohibited. The Notes are within the scope of FSP APB 14-1. We have adopted the provisions of FSP APB 14-1, and as such, have adjusted the reported amounts in our Statements of Operations for the quarter and six months ended June 22, 2008 and Balance Sheet as of December 21, 2008 as follows (in thousands except per share amounts):

Statements of Operations:


	Quarter Ended June 22, 2008							Six Months Ended June 22, 2008
	As					As		As					As
	Reported		Adjustments			Adjusted		Reported		Adjustments			Adjusted

Interest expense, net	$	8,147	$	2,206		$	10,353	$	17,156	$	4,357		$	21,513
Income tax expense		1,298		(805	)		493		1,802		(1,590	)		212
Net income		7,235		(1,401	)		5,834		9,326		(2,767	)		6,559

Net income per share
Basic		0.24		(0.05	)		0.19		0.31		(0.10	)		0.21
Diluted		0.24		(0.05	)		0.19		0.31		(0.10	)		0.21

Balance Sheet:


	December 21, 2008
	As					As
	Reported		Adjustments			Adjusted

Intangible assets, net	$	126,697	$	(1,155	)	$	125,542
Deferred tax assets		23,992		(13,323	)		10,669
Total assets		887,107		(14,478	)		872,629

Long-term debt, net of current		563,916		(37,657	)		526,259
Additional paid in capital		168,779		30,865			199,644
Retained earnings		29,780		(7,686	)		22,094
Total liabilities and stockholders’ equity		887,107		(14,478	)		872,629

In June 2008, the FASB issued Staff Position No. EITF 03-6-1, “Determining Whether Instruments Granted in Share-Based Payment Transactions Are Participating Securities” (“FSP EITF 03-6-1”). FSP EITF 03-6-1 concludes that unvested share-based payment awards that contain rights to receive non-forfeitable dividends or dividend equivalents (whether paid or unpaid) are participating securities, and thus, should be included in the two-class method of computing earnings per share (“EPS”). FSP EITF 03-6-1 is effective for fiscal years beginning after December 15, 2008, and interim periods within those years. Retrospective application to all periods presented is required and early application is prohibited. We have adopted the provisions of FSP EITF 03-6-1 and as such, and have adjusted the reported amounts of basic and diluted shares outstanding for the quarter and six months ended June 22, 2008 as follows:


	Quarter Ended June 22, 2008							Six Months Ended June 22, 2008
	As					As		As					As
	Reported		Adjustments			Adjusted		Reported		Adjustments			Adjusted

Denominator for basic net income per share		29,919		274			30,193		30,105		238			30,343
Effect of dilutive securities		244		(164	)		80		409		(170	)		239

Denominator for diluted net income per share		30,163		110			30,273		30,514		68			30,582

In February 2007, the FASB issued SFAS No. 159, “The Fair Value Option for Financial Assets and Financial Liabilities-including an amendment of FASB Statement No. 115” (“SFAS 159”). SFAS 159 allows an entity the irrevocable option to elect fair value for the initial and subsequent measurement of certain financial assets and liabilities under an instrument-by-instrument election. Subsequent measurements for the financial assets and liabilities an entity elects to measure at fair value will be recognized in the results of operations. SFAS 159 also establishes additional disclosure requirements. This standard is effective for fiscal years beginning after November 15, 2007. Effective for fiscal year 2008, we have adopted the provisions of SFAS 159. The adoption did not have an impact on our results of operations and financial position.

In September 2006, the FASB issued SFAS No. 157, “Fair Value Measurements” (“SFAS 157”). SFAS 157 addresses how companies should measure fair value when they are required to use a fair value measure for recognition or disclosure purposes under generally accepted accounting principles. As a result of SFAS 157 there is now a common definition of fair value to be used throughout GAAP. The FASB believes that the new standard will make the measurement of fair value more consistent and comparable and improve disclosures about those measures. The provisions of SFAS 157 were to be effective for fiscal years beginning after November 15, 2007. On February 6, 2008, the FASB agreed to defer the effective date of SFAS 157 for one year for certain nonfinancial assets and nonfinancial liabilities, except those that are recognized or disclosed at fair value in the financial statements on a recurring basis (at least annually). Effective for fiscal 2008, we have adopted SFAS 157 except as it applies to those nonfinancial assets and nonfinancial liabilities. The adoption did not have an impact on our results of operations and financial position.

Forward Looking Statements

This Form 10-Q contains “forward-looking statements” within the meaning of the federal securities laws. These forward-looking statements are intended to qualify for the safe harbor from liability established by the Private Securities Litigation Reform Act of 1995. Forward-looking statements are those that do not relate solely to historical fact. They include, but are not limited to, any statement that may predict, forecast, indicate or imply future results, performance, achievements or events. Words such as, but not limited to, “believe,” “expect,” “anticipate,” “estimate,” “intend,” “plan,” “targets,” “projects,” “likely,” “will,” “would,” “could” and similar expressions or phrases identify forward-looking statements.

All forward-looking statements involve risks and uncertainties. The occurrence of the events described, and the achievement of the expected results, depend on many events, some or all of which are not predictable or within our control. Actual results may differ materially from expected results.

Factors that may cause actual results to differ from expected results include: decreases in shipping volumes; final approval by the court of the settlement agreement with the plaintiffs in the Puerto Rico MDL litigation; legal or other proceedings to which we are or may become subject, including the Department of Justice antitrust investigation and related legal proceedings; changes in tax laws or in their interpretation or application (including the repeal of the application of the tonnage tax to our trade in any one of our applicable shipping routes); rising fuel prices; our substantial debt; restrictive covenants under our debt agreements; our failure to renew our commercial agreements with Maersk; labor interruptions or strikes; job related claims, liability under multi-employer pension plans; compliance with safety and environmental protection and other governmental requirements; new statutory and regulatory directives in the United States addressing homeland security concerns; the successful start-up of any Jones-Act competitor; increased inspection procedures and tighter import and export controls; restrictions on foreign ownership of our vessels; repeal or substantial amendment of the coastwise laws of the United States, also known as the Jones Act; escalation of insurance costs, catastrophic losses and other liabilities; the arrest of our vessels by maritime claimants; severe weather and natural disasters; our inability to exercise our purchase options for our chartered vessels; the aging of our vessels; unexpected substantial dry-docking costs for our vessels; the loss of our key management personnel; actions by our stockholders; and adverse tax audits and other tax matters.

In light of these risks and uncertainties, expected results or other anticipated events or circumstances discussed in this Form 10-Q (including the exhibits hereto) might not occur. We undertake no obligation, and specifically decline any obligation, to publicly update or revise any forward-looking statements, whether as a result of new information, future events or otherwise.

See the section entitled “Risk Factors” in our Form 10-K for the fiscal year ended December 21, 2008 as filed with the SEC for a more complete discussion of these risks and uncertainties and for other risks and uncertainties. Those factors and the other risk factors described therein are not necessarily all of the important factors that could cause actual results or developments to differ materially from those expressed in any of our forward-looking statements. Other unknown or unpredictable factors also could harm our results. Consequently, there can be no assurance that actual results or developments anticipated by us will be realized or, even if substantially realized, that they will have the expected consequences to, or effects on, us. Given these uncertainties, prospective investors are cautioned not to place undue reliance on such forward-looking statements.

3. Quantitative and Qualitative Disclosures About Market Risk

We maintain a policy for managing risk related to exposure to variability in interest rates, fuel prices, and other relevant market rates and prices. Our policy includes entering into derivative instruments in order to mitigate our risks.

Exposure relating to our Senior Credit Facility and our exposure to bunker fuel price increases are discussed in our Form 10-K for the year ended December 21, 2008. There have been no material changes to these market risks since December 21, 2008.

There have been no material changes in the quantitative and qualitative disclosures about market risk since December 21, 2008. Information concerning market risk is incorporated by reference to Part II, Item 7A “Quantitative and Qualitative Disclosures about Market Risk” of our Form 10-K for the fiscal year ended December 21, 2008.

4. Controls and Procedures

Disclosure Controls and Procedures

The Company maintains disclosure controls and procedures designed to ensure information required to be disclosed in Company reports filed under the Securities Exchange Act of 1934, as amended (“the Exchange Act”), is recorded, processed, summarized, and reported within the time periods specified in the Securities and Exchange Commission’s rules and forms. Disclosure controls and procedures are designed to provide reasonable assurance that information required to be disclosed in Company reports filed under the Exchange Act is accumulated and communicated to management, including the Company’s Chief Executive Officer and Chief Financial Officer, as appropriate, to allow timely decisions regarding required disclosure.

Internal Control over Financial Reporting

The Company’s management, with the participation of the Company’s Chief Executive Officer and Chief Financial Officer, has evaluated the effectiveness of the Company’s internal control over financial reporting as of June 21, 2009 based on the control criteria established in a report entitled Internal Control — Integrated Framework, issued by the Committee of Sponsoring Organizations of the Treadway Commission (COSO). Based on such evaluation management has concluded that the Company’s internal control over financial reporting is effective as of June 21, 2009.

Changes in Internal Control

There were no changes in the Company’s internal control over financial reporting during the Company’s fiscal quarter ending June 21, 2009 that have materially affected, or are reasonably likely to materially affect, the Company’s internal control over financial reporting.

PART II. OTHER INFORMATION

1. Legal Proceedings

On April 17, 2008, we received a grand jury subpoena and search warrant from the U.S. District Court for the Middle District of Florida seeking information regarding an investigation by the Antitrust Division of the Department of Justice (the “DOJ”) into possible antitrust violations in the domestic ocean shipping business. Subsequently, the DOJ expanded the timeframe covered by the subpoena. We are currently providing documents to the DOJ in response to the subpoena. We intend to cooperate fully with the DOJ in its investigation.

We have entered into a conditional amnesty agreement with the DOJ under its Corporate Leniency Policy. The amnesty agreement pertains to a single contract relating to ocean shipping services provided to the United States Department of Defense. The DOJ has agreed to not bring any criminal prosecution with respect to that government contract as long as we, among other things, continue our full cooperation in the investigation. The amnesty does not bar a claim for damages that may be sought by the DOJ under any applicable federal law or regulation.

Subsequent to the commencement of the DOJ investigation, a number of purported class action lawsuits were filed against us and other domestic shipping carriers. Fifty-six cases have been filed in the following federal district courts: eight in the Southern District of Florida, six in the Middle District of Florida, nineteen in the District of Puerto Rico, eleven in the Northern District of California, two in the Central District of California, one in the District of Oregon, eight in the Western District of Washington, and one in the District of Alaska. All of the foregoing district court cases that related to ocean shipping services in the Puerto Rico tradelane were consolidated into a single multidistrict litigation (“MDL”) proceeding in the District of Puerto Rico. All of the foregoing district court cases that related to ocean shipping services in the Hawaii and Guam tradelanes were consolidated into MDL proceedings in the Western District of Washington. One district court case remains in the District of Alaska, relating to the Alaska tradelane.

On June 11, 2009, we entered into a settlement agreement with the plaintiffs in the Puerto Rico MDL litigation. Under the settlement agreement, which is subject to Court approval, we have agreed to pay $20.0 million and to certain base-rate freezes to resolve claims for alleged antitrust violations in the Puerto Rico tradelane. Subsequent to June 21, 2009, we paid $5.0 million into an escrow account pursuant to the terms of the settlement agreement and will be required to pay $5.0 million within 90 days after preliminary approval of the settlement agreement by the district court and $10.0 million within five business days after final approval of the settlement agreement by the district court.

On March 20, 2009, we filed a motion to dismiss the claims in the Hawaii and Guam MDL litigation. The plaintiffs filed a response to our motion to dismiss on April 20, 2009, and we filed a reply on May 8, 2009. The court has scheduled a hearing on July 29, 2009 to consider our motion to dismiss. Discovery in the Alaska MDL litigation has been stayed. We intend to vigorously defend against those purported class action lawsuits.

In addition, on July 9, 2008, a complaint was filed by Caribbean Shipping Services, Inc. in the Circuit Court, 4th Judicial Circuit in and for Duval County, Florida, against us and other domestic shipping carriers alleging price-fixing in violation of the Florida Antitrust Act and the Florida Deceptive and Unlawful Trade Practices Act. The complaint seeks treble damages, injunctive relief, costs and attorneys’ fees. The case is not brought as a class action. This matter is pending discovery.

Through June 21, 2009, we have incurred approximately $19.2 million in legal and professional fees associated with the DOJ investigation and the antitrust related litigation. At June 21, 2009, a reserve of $20.0 million related to the settlement of the Puerto Rico MDL litigation has been included in other accrued liabilities on our condensed consolidated balance sheet. We are unable to predict the outcome of the Hawaii and Guam MDL litigation, the Alaska class-action litigation and the Florida Circuit Court litigation. We have not made any provision for any of these claims in the accompanying financial statements. It is possible that the outcome of these proceedings could have a material adverse effect on our financial condition, cash flows and results of operations.

Two securities class action lawsuits were filed in the United States District Court for the District of Delaware, naming us and five current and former employees, including our Chief Executive Officer, as defendants. The first complaint was filed on December 31, 2008 and the second complaint was filed on January 27, 2009, but was subsequently voluntarily dismissed by the plaintiffs. Each complaint purports to be on behalf of purchasers of the Company’s common stock during the period from March 2, 2007 through April 25, 2008. The complaints allege, among other things, that we made material misstatements and omissions in connection with alleged price-fixing in the Company’s shipping business in Puerto Rico in violation of antitrust laws. We are unable to predict the outcome of these lawsuits; however, we believe that we have appropriate disclosure practices and intend to vigorously defend against the lawsuits.

On May 13, 2009, we were served with a complaint filed by a shareholder in Delaware Chancery Court seeking production of certain books and records pursuant to Section 220 on the Delaware General Corporation law. We are working with the plaintiff to see if agreement can be reached on the scope of the required document production.

In the ordinary course of business, from time to time, we become involved in various legal proceedings. These relate primarily to claims for loss or damage to cargo, employees’ personal injury claims, and claims for loss or damage to the person or property of third parties. We generally maintain insurance, subject to customary deductibles or self-retention amounts, and/or reserves to cover these types of claims. We also, from time to time, become involved in routine employment-related disputes and disputes with parties with which they have contracts.

1A. Risk Factors

There have been no material changes from our risk factors as previously reported in our Annual Report to the SEC on Form 10-K for the fiscal year ended December 21, 2008.

2. Unregistered Sales of Equity Securities and Use of Proceeds

None.

3. Defaults Upon Senior Securities

None.

4. Submission of Matters to a Vote of Security-Holders

At the Annual Meeting of the Stockholders of the Company (the “Annual Meeting”) held June 2, 2009, stockholders voted to:

(a)

Elect to the Board of Directors of the Company the three Class I directors named as the Company’s nominees in the Proxy Statement for the Annual Meeting, filed with the SEC on April 16, 2009, as follows:


			Shares
			Withholding
Nominee	Shares Voting For		Authority to Vote
James G. Cameron		27,226,340		404,260
Alex J. Mandl		25,486,286		2,144,314
Norman Y. Mineta		25,926,011		1,704,589

There were no abstentions or broker non-votes with respect to the election of the Board of Directors. The directors whose term of office as a director continued after the meeting are Vern Clark, Dan A. Colussy, James W. Down, William J. Flynn, and Thomas P. Storrs.

(b)

Approve the Company’s 2009 Incentive Compensation Plan.


For	Against		Abstain
21,937,511		919,546		25,919

(c)

Approve the Company’s 2009 Employee Stock Purchase Plan.


For	Against		Abstain
21,267,358		1,593,742		21,876

(d)

Ratify the action of the Audit Committee of the Board of Directors in appointing Ernst & Young LLP as independent registered public accounting firm for the 2009 fiscal year.


For	Against		Abstain
27,566,718		42,420		21,462

5. Other Information

None.

6. Exhibits


10.1		Performance Grant Agreement dated May 14, 2009, between Horizon Lines, Inc. and Charles G. Raymond (filed as Exhibit 10.1 to the Company’s report on Form 8-K filed May 20, 2009).

10.2		Form of Restricted Stock Award Agreement for Outside Directors (filed as Exhibit 10.1 to the Company’s report on Form 8-K filed June 5, 2009).

10.3		Settlement Agreement (filed as Exhibit 10.1 to the Company’s report on Form 8-K filed June 12, 2009).

10.4		First Amendment to Credit Agreement (filed as Exhibit 10.2 to the Company’s report on Form 8-K filed June 12, 2009).

31.1	*	Certification of Chief Executive Officer Pursuant to Section 302 of the Sarbanes-Oxley Act of 2002.

31.2	*	Certification of Chief Financial Officer Pursuant to Section 302 of the Sarbanes-Oxley Act of 2002.

32.1	*	Certification of Chief Executive Officer Pursuant to 18 U.S.C. Section 1350, as Adopted Pursuant to Section 906 of the Sarbanes-Oxley Act of 2002.

32.2	*	Certification of Chief Financial Officer Pursuant to 18 U.S.C. Section 1350, as Adopted Pursuant to Section 906 of the Sarbanes-Oxley Act of 2002.


*		Filed herewith.

EXHIBIT INDEX


Exhibit
No.			Description
	10.1		Performance Grant Agreement dated May 14, 2009, between Horizon Lines, Inc. and Charles G. Raymond (filed as Exhibit 10.1 to the Company’s report on Form 8-K filed May 20, 2009).

	10.2		Form of Restricted Stock Award Agreement for Outside Directors (filed as Exhibit 10.1 to the Company’s report on Form 8-K filed June 5, 2009).

	10.3		Settlement Agreement (filed as Exhibit 10.1 to the Company’s report on Form 8-K filed June 12, 2009).

	10.4		First Amendment to Credit Agreement (filed as Exhibit 10.2 to the Company’s report on Form 8-K filed June 12, 2009).

	31.1	*	Certification of Chief Executive Officer Pursuant to Section 302 of the Sarbanes-Oxley Act of 2002.

	31.2	*	Certification of Chief Financial Officer Pursuant to Section 302 of the Sarbanes-Oxley Act of 2002.

	32.1	*	Certification of Chief Executive Officer Pursuant to 18 U.S.C. Section 1350, as Adopted Pursuant to Section 906 of the Sarbanes-Oxley Act of 2002.

	32.2	*	Certification of Chief Financial Officer Pursuant to 18 U.S.C. Section 1350, as Adopted Pursuant to Section 906 of the Sarbanes-Oxley Act of 2002.


*		Filed herewith.


	Page No.

Part I. Financial Information		3

1. Financial Statements		3

Unaudited Condensed Consolidated Balance Sheets		3

Unaudited Condensed Consolidated Statements of Operations		4

Unaudited Condensed Consolidated Statements of Cash Flows		5

Notes to Unaudited Condensed Consolidated Financial Statements		6

2. Management’s Discussion and Analysis of Financial Condition and Results of Operations		21

3. Quantitative and Qualitative Disclosures About Market Risk		38

4. Controls and Procedures		39

Part II. Other Information		40

1. Legal Proceedings		40

1A. Risk Factors		41

2. Unregistered Sales of Equity Securities and Use of Proceeds		41

3. Defaults Upon Senior Securities		41

4. Submission of Matters to a Vote of Security Holders		41

5. Other Information		42

6. Exhibits		42

Signature		43

Exhibit 31.1
Exhibit 31.2
Exhibit 32.1
Exhibit 32.2


	HORIZON LINES, INC.
	By:	/s/ MICHAEL T. AVARA
		Michael T. Avara
		Senior Vice President & Chief Financial Officer (Principal Financial Officer & Authorized Signatory)