Ownership Submission
FORM 4
Check this box if no longer subject to Section 16. Form 4 or Form 5 obligations may continue. See Instruction 1(b).
UNITED STATES SECURITIES AND EXCHANGE COMMISSION
Washington, D.C. 20549

STATEMENT OF CHANGES IN BENEFICIAL OWNERSHIP OF SECURITIES

Filed pursuant to Section 16(a) of the Securities Exchange Act of 1934, Section 17(a) of the Public Utility Holding Company Act of 1935 or Section 30(h) of the Investment Company Act of 1940
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(Print or Type Responses)
1. Name and Address of Reporting Person *
WHITE TONY L
   2. Issuer Name and Ticker or Trading Symbol
APPLERA CORP [ABI/CRA] 		5. Relationship of Reporting Person(s) to Issuer
(Check all applicable)
__X__ Director _____ 10% Owner
__X__ Officer (give title below) _____ Other (specify below)
Chairman, President and CEO
(Last)
(First)
(Middle)
APPLERA CORPORATION, 301 MERRITT 7		 3. Date of Earliest Transaction (Month/Day/Year)
10/08/2006
(Street)

NORWALK, CT 06851-1070		 4. If Amendment, Date Original Filed(Month/Day/Year)
 6. Individual or Joint/Group Filing(Check Applicable Line)
_X_ Form filed by One Reporting Person
___ Form filed by More than One Reporting Person
(City)
(State)
(Zip)
Table I - Non-Derivative Securities Acquired, Disposed of, or Beneficially Owned
1.Title of Security
(Instr. 3)		 2. Transaction Date (Month/Day/Year) 2A. Deemed Execution Date, if any (Month/Day/Year) 3. Transaction Code
(Instr. 8)		 4. Securities Acquired (A) or Disposed of (D)
(Instr. 3, 4 and 5)		 5. Amount of Securities Beneficially Owned Following Reported Transaction(s)
(Instr. 3 and 4)		 6. Ownership Form: Direct (D) or Indirect (I)
(Instr. 4)		 7. Nature of Indirect Beneficial Ownership
(Instr. 4)
Code V Amount (A) or (D) Price
Applied Biosystems Group Common Stock 10/08/2006   M   9,303 A $ 33.405 (1) 705,589.2486 D  
Applied Biosystems Group Common Stock 10/08/2006   D   9,303 D $ 33.405 (1) 696,286.2486 D  
Applied Biosystems Group Common Stock               75,000 I By Elizabeth Ann White Business Interests, LLLP (2)
Applied Biosystems Group Common Stock               63,000 I By Tony Lee White 2006 Two Year Grantor Retained Annuity Trust (3)

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Table II - Derivative Securities Acquired, Disposed of, or Beneficially Owned
(e.g., puts, calls, warrants, options, convertible securities)
1. Title of Derivative Security
(Instr. 3)		 2. Conversion or Exercise Price of Derivative Security 3. Transaction Date (Month/Day/Year) 3A. Deemed Execution Date, if any (Month/Day/Year) 4. Transaction Code
(Instr. 8)		 5. Number of Derivative Securities Acquired (A) or Disposed of (D)
(Instr. 3, 4, and 5)		 6. Date Exercisable and Expiration Date
(Month/Day/Year)		 7. Title and Amount of Underlying Securities
(Instr. 3 and 4)		 8. Price of Derivative Security
(Instr. 5)		 9. Number of Derivative Securities Beneficially Owned Following Reported Transaction(s)
(Instr. 4)		 10. Ownership Form of Derivative Security: Direct (D) or Indirect (I)
(Instr. 4)		 11. Nature of Indirect Beneficial Ownership
(Instr. 4)
Code V (A) (D) Date Exercisable Expiration Date Title Amount or Number of Shares
Applied Biosystems Group Series FY03-4 Performance Units (4) 10/08/2006   M     20,000 (5)   (4) 03/24/2013 Applied Biosystems Group Common Stock (4) 20,000 (4) 0 D  

Reporting Owners

Reporting Owner Name / Address Relationships
 Director  10% Owner  Officer  Other
WHITE TONY L
APPLERA CORPORATION
301 MERRITT 7
NORWALK, CT 06851-1070		   X     Chairman, President and CEO  

Signatures

 /s/ Thomas P. Livingston, Attorney-in-Fact for Tony L. White   10/10/2006
**Signature of Reporting Person Date

Explanation of Responses:

* If the form is filed by more than one reporting person, see Instruction 4(b)(v).
** Intentional misstatements or omissions of facts constitute Federal Criminal Violations. See 18 U.S.C. 1001 and 15 U.S.C. 78ff(a).
(1) Represents settlement of Performance Units for cash as described in footnote 5 below. Price listed is the fair market value of Applera Corporation - Applied Biosystems Group Common Stock ("ABI Stock") on the settlement date. The settlement date was a Sunday, and therefore, the fair market value on the settlement date is based on the trading price of ABI Stock on October 6, 2006, the last trading date prior to the settlement date.
(2) Elizabeth Ann White Business Interests, LLLP, is a family limited partnership (the "FLP"). The reporting person's adult daughter is the sole general partner of the FLP, and the reporting person's wife and a grantor retained annuity trust established by the reporting person are currently the sole limited partners of the FLP.
(3) The reporting person's wife is the sole trustee of the Tony Lee White 2006 Two Year Grantor Retained Annuity Trust.
(4) The Performance Units provide for payment upon ABI Stock attaining price targets of $26.79 and $32.04 per share for a specified period and are payable over a minimum of eight quarters, subject to continued employment and an aggregate program expense cap. Units are payable in cash equal to $15.54 for each Performance Unit.
(5) Represents the payment of 20,000 Performance Units upon attainment of the $32.04 price target described in footnote 4 above.

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