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<H5 align="left" style="page-break-before:always"><A HREF="#toc">Table of Contents</A></H5><P>
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<DIV style="width: 100%; border-bottom: 2pt solid black; font-size: 1pt">&nbsp;</DIV>
<DIV style="width: 100%; border-bottom: 1pt solid black; font-size: 1pt">&nbsp;</DIV>





<DIV align="center" style="font-size: 10pt; margin-top: 18pt">As filed with the Securities and Exchange Commission on August&nbsp;11, 2005
</DIV>
<DIV align="right" style="font-size: 10pt; margin-top: 1pt">
Registration No.&nbsp;333-
</DIV>

<DIV align="center" style="font-size: 14pt; margin-top: 12pt"><B>UNITED STATES<BR>
SECURITIES AND EXCHANGE COMMISSION</B>
</DIV>

<DIV align="center" style="font-size: 12pt"><B>Washington, D.C. 20549</B>
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><DIV align="center"><DIV style="font-size: 3pt; margin-top: 16pt; width: 26%; border-top: 1px solid #000000">&nbsp;</DIV></DIV>
</DIV>

<DIV align="center" style="font-size: 18pt; margin-top: 12pt"><B>FORM S-8</B>
</DIV>

<DIV align="center" style="font-size: 10pt"><B>REGISTRATION STATEMENT
<br>AND<br> POST-EFFECTIVE AMENDMENT NO. 1 TO REGISTRATION
STATEMENTS</B></DIV>


<DIV align="center" style="font-size: 10pt">NO. 33-86634, 33-94872, 333-21997, 333-59157, 333-39480, 333-63804, 333-100793, 333-106196, AND 333-126579</DIV>



<DIV align="center" style="font-size: 12pt"><B>UNDER<BR>
THE SECURITIES ACT OF 1933</B>
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><DIV align="center"><DIV style="font-size: 1pt; margin-top: 16pt; width: 26%; border-top: 1px solid #000000">&nbsp;</DIV></DIV>
</DIV>

<DIV align="center" style="font-size: 24pt; margin-top: 12pt"><B><U>SOLEXA, INC.</U></B>
</DIV>

<DIV align="center" style="font-size: 10pt">(Exact name of registrant as specified in its charter)</DIV>


<DIV align="center">
<TABLE style="font-size: 10pt" cellspacing="0" border="0" cellpadding="0" width="100%">
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<TR valign="bottom">
    <TD align="center" valign="top">Delaware
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">94-3161073</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top">(State of Incorporation)
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">(I.R.S. Employer Identification No.)</TD>
</TR>
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</TABLE>
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><DIV align="center"><DIV style="font-size: 3pt; margin-top: 16pt; width: 26%; border-top: 1px solid #000000">&nbsp;</DIV></DIV>
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt">25861 Industrial Blvd.<BR>
<U>Hayward, California 94545</U><BR>
(Address of principal executive offices)
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt">1992 Stock Option Plan<BR>
<U>2005 Equity Incentive Plan</U><BR>
(Full title of the plans)
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt">John West<BR>
Chief Executive Officer<BR>
Solexa, Inc.<BR>
25861 Industrial Blvd.<BR>
Hayward, California 94545<BR>
<U>(510)&nbsp;670-9300</U><BR>
(Name, address, including zip code, and telephone number, including area code, of agent for service)
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><DIV align="center"><DIV style="font-size: 3pt; margin-top: 16pt; width: 26%; border-top: 1px solid #000000">&nbsp;</DIV></DIV>
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt">Copies to:<BR>
James C. Kitch, Esq.<BR>
Cooley Godward LLP<BR>
Five Palo Alto Square<BR>
3000 El Camino Real<BR>
Palo Alto, CA 94306-2155<BR>
(650)&nbsp;843-5000
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt">
<DIV align="center"><DIV style="font-size: 3pt; width: 26%; border-top: 1px solid #000000">&nbsp;</DIV></DIV>
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><B>CALCULATION OF REGISTRATION FEE</B><br><BR>


<DIV align="center">
<TABLE style="font-size: 10pt" cellspacing="0" border="0" cellpadding="0" width="100%">
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    <TD width="1%">&nbsp;</TD>
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    <TD width="2%">&nbsp;</TD>
    <TD width="7%">&nbsp;</TD>

    <TD width="1%">&nbsp;</TD>
</TR><TR style="font-size: 1px" valign="bottom">
    <TD nowrap align="left" colspan="15" style="border-bottom: 3px solid #000000">&nbsp;</TD>
</TR>
<TR style="font-size: 8pt" valign="bottom">    <TD width="1%">&nbsp;</TD>

    <TD>&nbsp;</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Proposed Maximum</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Proposed Maximum</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">&nbsp;</TD>
    <TD width="1%">&nbsp;</TD>
</TR>
<TR style="font-size: 8pt" valign="bottom">    <TD width="1%">&nbsp;</TD>

    <TD nowrap align="center">Title of Securities</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Amount to be</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Offering</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Aggregate</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Amount of</TD>
    <TD width="1%">&nbsp;</TD>
</TR>
<TR style="font-size: 8pt" valign="bottom">    <TD width="1%">&nbsp;</TD>

    <TD nowrap align="center">to be Registered</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Registered</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Price per Share</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Offering Price</TD>
    <TD style="border-right: 1px solid #000000">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">Registration Fee</TD>
    <TD width="1%">&nbsp;</TD>
</TR>

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    <TD width="1%" style="border-top: 1px solid #000000">&nbsp;</TD>
                    <TD style="border-top: 1px solid #000000"><DIV style="margin-left:15px; text-indent:-15px">Common Stock, par value $0,01 per share</DIV></TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD align="center" valign="top" style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD align="center" valign="top" style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD align="center" valign="top" style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD align="center" valign="top" style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD width="1%" style="border-top: 1px solid #000000">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD width="1%" style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap style="border-top: 1px solid #000000"><DIV style="margin-left:30px; text-indent:-15px">Shares not previously registered</DIV></TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap align="center" valign="top" style="border-top: 1px solid #000000">1,800,000(1)</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap align="center" valign="top" style="border-top: 1px solid #000000">$4.83(2)</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap align="center" valign="top" style="border-top: 1px solid #000000">$8,694,000.00(2)</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap align="center" valign="top" style="border-top: 1px solid #000000">$1,023.28(2)</TD>
    <TD width="1%" style="border-top: 1px solid #000000">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD width="1%" style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap style="border-top: 1px solid #000000"><DIV style="margin-left:30px; text-indent:-15px">Shares previously registered</DIV></TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap align="center" valign="top" style="border-top: 1px solid #000000">1,350,504(1)</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap align="center" valign="top" style="border-top: 1px solid #000000">N/A(3)</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap align="center" valign="top" style="border-top: 1px solid #000000">N/A(3)</TD>
    <TD style="border-right: 1px solid #000000; border-top: 1px solid #000000">&nbsp;</TD>
    <TD style="border-top: 1px solid #000000">&nbsp;</TD>
    <TD nowrap align="center" valign="top" style="border-top: 1px solid #000000">N/A(3)</TD>
    <TD width="1%" style="border-top: 1px solid #000000">&nbsp;</TD>
</TR>
<TR style="font-size: 1px" valign="bottom">
    <TD nowrap align="left" colspan="15" style="border-top: 3px solid #000000">&nbsp;</TD>
</TR>

<!-- End Table Body -->
</TABLE>
</DIV>
<DIV align="left" style="font-size: 8pt; margin-top: 6pt">This Registration Statement is (a)&nbsp;a new registration statement; (b)&nbsp;a Post-Effective Amendment
No.&nbsp;1 to the registrant&#146;s registration statement on Form S-8 (File No.&nbsp;33-86634), as filed with the
Securities and Exchange Commission on November&nbsp;22, 1994 (the &#147;1994 Registration Statement&#148;); (c)&nbsp;a
Post-Effective Amendment No.&nbsp;1 to the registrant&#146;s registration statement on Form S-8 (File No.
33-94872), as filed with the Securities and Exchange Commission on July&nbsp;24, 1995 (the &#147;1995
Registration Statement&#148;); (d)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the registrant&#146;s registration
statement on Form S-8 (File No.&nbsp;333-21997), as filed with the Securities and Exchange Commission on
February&nbsp;19, 1997 (the &#147;1997 Registration Statement&#148;); (e)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the
registrant&#146;s registration statement on Form S-8 (File No.&nbsp;333-59157), as filed with the Securities
and Exchange Commission on July&nbsp;15, 1998 (the &#147;1998 Registration Statement&#148;); (f)&nbsp;a Post-Effective
Amendment No.&nbsp;1 to the registrant&#146;s registration statement on Form S-8 (File No.&nbsp;333-39480), as
filed with the Securities and Exchange Commission on June&nbsp;16, 2000 (the &#147;2000 Registration
Statement&#148;); (g)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the registrant&#146;s registration statement on
Form S-8 (File No.&nbsp;333-63804), as filed with the Securities and Exchange Commission on June&nbsp;25,
2001 (the &#147;2001 Registration Statement&#148;); (h)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the registrant&#146;s
registration statement on Form S-8 (File No.&nbsp;333-100793), as filed with the Securities and Exchange
Commission on October&nbsp;28, 2002 (the &#147;2002 Registration Statement&#148;); (i)&nbsp;a Post-Effective Amendment
No.&nbsp;1 to the registrant&#146;s registration statement on Form S-8 (File No.&nbsp;333-106196), as filed with
the Securities and Exchange Commission on June&nbsp;17, 2003 (the &#147;2003 Registration Statement&#148;); and
(j)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the registrant&#146;s registration statement on Form S-8 (File
No.&nbsp;333-126579), as filed with the Securities and Exchange Commission on July&nbsp;13, 2005 (the &#147;2005
Registration Statement&#148;) (the 1994 Registration Statement, the 1995 Registration Statement, the
1997 Registration Statement, the 1998 Registration Statement, the 2000 Registration Statement, the
2001 Registration Statement, the 2002 Registration Statement, the 2003 Registration Statement and
the 2005 Registration Statement are collectively referred herein as the &#147;Prior Registration
Statements&#148;). Pursuant to the Prior Registration Statements, shares of common stock, par value
$0.01, were registered for issuance under the Registrant&#146;s 1992 Stock Option Plan, as amended (the
&#147;Prior Plan&#148;).
</DIV>

<DIV align="left"><DIV style="font-size: 3pt; margin-top: 16pt; width: 30%; border-top: 1px solid #000000">&nbsp;</DIV></DIV>

<DIV align="left" style="font-size: 8pt; margin-top: 6pt">(1)&nbsp;This Registration Statement covers 1,800,000 shares, not previously registered, under the
Solexa, Inc. 2005 Equity Incentive Plan (the &#147;2005 Plan&#148;), which is the successor plan to the Prior
Plan. In addition, this Registration Statement covers up to 1,350,504 shares which were previously
registered under the Prior Registration Statements for offer or sale under the Prior Plan and which
may be offered or sold under the 2005 Plan (the &#147;Carried Forward Shares&#148;). The Carried Forward
Shares consist of shares remaining available for issuance under the Prior Plan and shares subject
to currently outstanding options under the Prior Plan. In the event any of these shares subject to
outstanding options are not issued under the Prior Plan, such as when an option granted under the
Prior Plan is canceled without being exercised, such shares will become available for issuance
under the 2005 Plan. Pursuant to Rule 416(a) of the Securities Act of 1933, as amended (the
&#147;Securities Act&#148;), this Registration Statement shall also cover any additional shares of
Registrant&#146;s Common Stock that become issuable under the 2005 Plan by reason of any stock dividend,
stock split, recapitalization or other similar transaction effected without receipt of
consideration that increases the number of outstanding shares of Registrant&#146;s Common Stock.
</DIV>

<DIV align="left" style="font-size: 8pt; margin-top: 6pt">(2)&nbsp;Estimated solely for the purpose of calculating the amount of the registration fee pursuant to
Rule 457(h) of the Securities Act. The price per share and aggregate offering price are based upon
the average of the high and low prices of Registrant&#146;s Common Stock on August&nbsp;5, 2005 as reported
on the Nasdaq SmallCap Market, in accordance with Rule 457(c) of the Securities Act.
</DIV>

<DIV align="left" style="font-size: 8pt; margin-top: 6pt">(3)&nbsp;The Carried Forward Shares were previously registered under the Prior Registration
Statements; therefore, no filing fee with respect to those shares is required (Interpretation 89
under Section&nbsp;G of the Securities and Exchange Commission Division of Corporate Finance Manual of
Publicly Available Telephone Interpretations (July&nbsp;1997) and Instruction E to the General
Instructions to Form S-8). The Post-Effective Amendments to the Prior Registration Statements are
filed here to reallocate the Carried Forward Shares from the Prior Registration Statements and to
carry over the registration fees paid for the Carried Forward Shares from the Prior Registration
Statements.
</DIV>


<DIV style="width: 100%; border-bottom: 1pt solid black; margin-top: 10pt; font-size: 1pt">&nbsp;</DIV>
<DIV style="width: 100%; border-bottom: 2pt solid black; font-size: 1pt">&nbsp;</DIV>





<P align="center" style="font-size: 10pt">&nbsp;
</DIV>

</DIV>
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<DIV style="font-family: 'Times New Roman',Times,serif">



<!-- TOC -->
<A name="toc"><DIV align="CENTER" style="page-break-before:always"><U><B>TABLE OF CONTENTS</B></U></DIV></A>

<P><CENTER>
<TABLE border="0" width="90%" cellpadding="0" cellspacing="0">
<TR>
	<TD width="3%"></TD>
	<TD width="3%"></TD>
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</TR>
<TR><TD colspan="9"><A HREF="#000">PART II</A></TD></TR>
<TR><TD colspan="9"><A HREF="#001">STATEMENT PURSUANT TO GENERAL INSTRUCTION E TO FORM S-8</A></TD></TR>
<TR><TD colspan="9"><A HREF="#002">Item&nbsp;3. INCORPORATION OF CERTAIN DOCUMENTS BY REFERENCE</A></TD></TR>
<TR><TD colspan="9"><A HREF="#003">Item&nbsp;4. DESCRIPTION OF SECURITIES</A></TD></TR>
<TR><TD colspan="9"><A HREF="#004">Item&nbsp;5. INTERESTS OF NAMED EXPERTS AND COUNSEL</A></TD></TR>
<TR><TD colspan="9"><A HREF="#005">Item&nbsp;6. INDEMNIFICATION OF DIRECTORS AND OFFICERS</A></TD></TR>
<TR><TD colspan="9"><A HREF="#006">Item&nbsp;7. EXEMPTION FROM REGISTRATION CLAIMED</A></TD></TR>
<TR><TD colspan="9"><A HREF="#007">Item&nbsp;8. EXHIBITS</A></TD></TR>
<TR><TD colspan="9"><A HREF="#008">Item&nbsp;9. UNDERTAKINGS</A></TD></TR>
<TR><TD colspan="9"><A HREF="#009">SIGNATURES</A></TD></TR>
<TR><TD colspan="9"><A HREF="#010">POWER OF ATTORNEY</A></TD></TR>
<TR><TD colspan="9"><A HREF="f11668exv5w1.htm">EXHIBIT 5.1</A></TD></TR>
<TR><TD colspan="9"><A HREF="f11668exv23w1.htm">EXHIBIT 23.1</A></TD></TR>
<TR><TD colspan="9"><A HREF="f11668exv23w2.htm">EXHIBIT 23.2</A></TD></TR>
</TABLE>
</CENTER>
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<H5 align="left" style="page-break-before:always"><A HREF="#toc">Table of Contents</A></H5><P>



<!-- link1 "PART II" -->
<DIV align="left"><A NAME="000"></A></DIV>

<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><B>PART II</B>
</DIV>

<!-- link1 "STATEMENT PURSUANT TO GENERAL INSTRUCTION E TO FORM S-8" -->
<DIV align="left"><A NAME="001"></A></DIV>

<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><B>STATEMENT PURSUANT TO GENERAL INSTRUCTION E TO FORM S-8</B>
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Solexa, Inc. (the &#147;Registrant&#148;) has filed this registration statement to register under the
Securities Act the offer and sale of 1,800,000 common shares, par value $0.01 per share, of
beneficial interest, not previously registered, in the Registrant, and up to 1,350,504 common
shares, par value $0.01 per share, which were previously registered (as further described below) of
beneficial interest in the Registrant, pursuant to the Solexa, Inc. 2005 Equity Incentive Plan (the
&#147;2005 Plan&#148;). This registration statement is (a)&nbsp;a new registration statement; (b)&nbsp;a Post-Effective
Amendment No.&nbsp;1 to the 1994 Registration Statement; (c)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the
1995 Registration Statement; (d)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the 1997 Registration
Statement; (e)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the 1998 Registration Statement; (f)&nbsp;a
Post-Effective Amendment No.&nbsp;1 to the 2000 Registration Statement; (g)&nbsp;a Post-Effective Amendment
No.&nbsp;1 to the 2001 Registration Statement; (h)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the 2002
Registration Statement; (i)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the 2003 Registration Statement;
and (j)&nbsp;a Post-Effective Amendment No.&nbsp;1 to the 2005 Registration Statement (the 1994 Registration
Statement, the 1995 Registration Statement, the 1997 Registration Statement, the 1998 Registration
Statement, the 2000 Registration Statement, the 2001 Registration Statement, the 2002 Registration
Statement, the 2003 Registration Statement and the 2005 Registration Statement are collectively
referred herein as the &#147;Prior Registration Statements&#148;). 1,350,504 shares registered hereby were
previously registered under the Prior Registration Statements for offer and sale pursuant to the
Registrant&#146;s 1992 Stock Option Plan, as amended (the &#147;Prior Plan&#148;).
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;The 2005 Plan was approved and adopted at the Registrant&#146;s annual meeting of stockholders on
July&nbsp;7, 2005 to supersede and replace the Prior Plan. The Registrant desires to have the shares of
common stock registered hereunder and issuable pursuant to the 2005 Plan to include those shares of
common stock described above whose offer and sale were registered under the Prior Registration
Statements. The shares carried over from the Prior Registration Statements are no longer available
for new awards under the Prior Plan. This Registration Statement covers 1,800,000 shares, not
previously registered, under the 2005 Plan, which is the successor plan to the Prior Plan. In
addition, this Registration Statement covers up to 1,350,504 shares which were previously
registered under the Prior Registration Statements for offer or sale under the Prior Plan and which
may be offered or sold under the 2005 Plan (the &#147;Carried Forward Shares&#148;). The Carried Forward
Shares consist of shares remaining available for issuance under the Prior Plan and shares subject
to currently outstanding options under the Prior Plan. In the event any of these shares subject to
outstanding options are not issued under the Prior Plan, such as when an option granted under the
Prior Plan is canceled without being exercised, such shares will become available for issuance
under the 2005 Plan. Pursuant to Rule 416(a) of the Securities Act, this Registration Statement
shall also cover any additional shares of the Registrant&#146;s Common Stock that become issuable under
the 2005 Plan and the Prior Plan by reason of any stock dividend, stock split, recapitalization or
other similar transaction effected without receipt of consideration that increases the number of
outstanding shares of the Registrant&#146;s Common Stock.
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Consequently, in accordance with the Interpretation 89 under Section&nbsp;G of the Securities and
Exchange Commission Division of Corporate Finance Manual of Publicly Available Telephone
Interpretations (July&nbsp;1997) and Instruction E to the General Instructions to Form S-8: (a)&nbsp;the
Registrant is (i)&nbsp;carrying over the Carried Forward Shares from the Prior Registration Statements,
and (ii)&nbsp;registering the offer and sale of 1,800,000 new common shares, of which all 3,150,504
shares may be offered and sold under the 2005 Plan pursuant to this registration statement; (b)&nbsp;the
registration fee allocable to the Carried Forward Shares carried over from the Prior Registration
Statements and paid in connection with the Prior Registration Statements is carried over in this
Registration Statement; and (c)&nbsp;the Prior Registration Statements are being amended on a
post-effective basis to disclose the succession of the 2005 Plan to the Prior Plan, pursuant to
this Registration Statement.
</DIV>

<DIV align="center" style="font-size: 10pt; margin-top: 18pt">II-1
</DIV>


<P align="center" style="font-size: 10pt">&nbsp;
</DIV>

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<H5 align="left" style="page-break-before:always"><A HREF="#toc">Table of Contents</A></H5><P>

<DIV style="font-family: 'Times New Roman',Times,serif">
<!-- link1 "Item&nbsp;3. INCORPORATION OF CERTAIN DOCUMENTS BY REFERENCE" -->
<DIV align="left"><A NAME="002"></A></DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 12pt"><B>Item&nbsp;3. INCORPORATION OF CERTAIN DOCUMENTS BY REFERENCE</B>
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;The following documents filed by Solexa, Inc. (the &#147;Registrant&#148;) with the Securities and
Exchange Commission (the &#147;SEC&#148;) are incorporated by reference into this Registration Statement of
Form S-8:
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;(a)&nbsp;Registrant&#146;s Annual Report on Form 10-K for the fiscal year ended December&nbsp;31, 2004 (File
No.&nbsp;000-22570), filed with the SEC on March&nbsp;31, 2005;
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;(b)&nbsp;Registrant&#146;s Quarterly Report on Form 10-Q for the quarterly period ended March&nbsp;31, 2005
(File No.&nbsp;000-22570), filed with the SEC on May&nbsp;23, 2005;
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;(c)&nbsp;Registrant&#146;s Current Reports on Form 8-K (File No.&nbsp;000-22570), filed with the SEC on
January&nbsp;3, 2005, January&nbsp;10, 2005, March&nbsp;7, 2005 (as amended by Amendment No.&nbsp;1 to Current Report
on Form 8-K/A filed with the SEC on May&nbsp;20, 2005), March&nbsp;29, 2005, April&nbsp;8, 2005, April&nbsp;26, 2005,
May&nbsp;11, 2005, May&nbsp;23, 2005, June&nbsp;9, 2005, June&nbsp;28, 2005 and July&nbsp;15, 2005; and
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;(d)&nbsp;The description of the Registrant&#146;s Common Stock contained in the Registrant&#146;s
Registration Statement on Form&nbsp;10 (File No.&nbsp;000-22570), filed with the SEC on October&nbsp;5, 1993,
including any amendment or report filed for the purpose of updating such description.
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;All reports and other documents subsequently filed by the Registrant pursuant to Sections
13(a), 13(c), 14 and 15(d) of the Securities Exchange Act of 1934, as amended, prior to the filing
of a post-effective amendment which indicates that all securities offered have been sold or which
deregisters all securities then remaining unsold, shall be deemed to be incorporated by reference
herein and to be a part of this registration statement from the date of the filing of such reports
and documents.
</DIV>
<!-- link1 "Item&nbsp;4. DESCRIPTION OF SECURITIES" -->
<DIV align="left"><A NAME="003"></A></DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 12pt"><B>Item&nbsp;4. DESCRIPTION OF SECURITIES</B>
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Not applicable.
</DIV>
<!-- link1 "Item&nbsp;5. INTERESTS OF NAMED EXPERTS AND COUNSEL" -->
<DIV align="left"><A NAME="004"></A></DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 12pt"><B>Item&nbsp;5. INTERESTS OF NAMED EXPERTS AND COUNSEL</B>
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Not applicable.
</DIV>
<!-- link1 "Item&nbsp;6. INDEMNIFICATION OF DIRECTORS AND OFFICERS" -->
<DIV align="left"><A NAME="005"></A></DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 12pt"><B>Item&nbsp;6. INDEMNIFICATION OF DIRECTORS AND OFFICERS</B>
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Article&nbsp;VI of the Registrant&#146;s Amended and Restated Certificate of Incorporation, as amended,
provides that, to the fullest extent permitted by the General Corporation Law of Delaware, as the
same now exists or may hereafter be amended, a director of the Registrant shall not be personally
liable to the corporation or its stockholders for monetary damages for breach of fiduciary duty as
a director. Delaware law provides that directors of a corporation will not be personally liable for
monetary damages for breach of their fiduciary duties as directors, except for liability:
</DIV>

<DIV style="margin-top: 6pt">
<TABLE width="100%" border="0" cellpadding="0" cellspacing="0" style="font-size: 10pt">

<TR valign="top" style="font-size: 10pt; color: #000000; background: transparent">
    <TD width="1%" nowrap align="left"><B>&#149;</B></TD>
    <TD width="1%">&nbsp;</TD>
    <TD>for any breach of their duty of loyalty to the corporation or its stockholders,</TD>
</TR>

</TABLE>
</DIV>

<DIV style="margin-top: 6pt">
<TABLE width="100%" border="0" cellpadding="0" cellspacing="0" style="font-size: 10pt">

<TR valign="top" style="font-size: 10pt; color: #000000; background: transparent">
    <TD width="1%" nowrap align="left"><B>&#149;</B></TD>
    <TD width="1%">&nbsp;</TD>
    <TD>for acts or omissions not in good faith or that involve intentional misconduct or a
knowing violation of law,</TD>
</TR>

</TABLE>
</DIV>

<DIV style="margin-top: 6pt">
<TABLE width="100%" border="0" cellpadding="0" cellspacing="0" style="font-size: 10pt">

<TR valign="top" style="font-size: 10pt; color: #000000; background: transparent">
    <TD width="1%" nowrap align="left"><B>&#149;</B></TD>
    <TD width="1%">&nbsp;</TD>
    <TD>for unlawful payments of dividends or unlawful stock repurchases or redemptions, or</TD>
</TR>

</TABLE>
</DIV>

<DIV style="margin-top: 6pt">
<TABLE width="100%" border="0" cellpadding="0" cellspacing="0" style="font-size: 10pt">

<TR valign="top" style="font-size: 10pt; color: #000000; background: transparent">
    <TD width="1%" nowrap align="left"><B>&#149;</B></TD>
    <TD width="1%">&nbsp;</TD>
    <TD>for any transaction from which the director derived an improper personal benefit.</TD>
</TR>

</TABLE>
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;The Registrant&#146;s Bylaws, as amended, provide that the Registrant shall indemnify its directors
and executive officers to the fullest extent not prohibited by Delaware law or other applicable
law, though the extent of
</DIV>

<DIV align="center" style="font-size: 10pt; margin-top: 18pt">II-2
</DIV>


<P align="center" style="font-size: 10pt">&nbsp;
</DIV>

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<DIV style="font-family: 'Times New Roman',Times,serif">



<DIV align="left" style="font-size: 10pt; margin-top: 6pt">indemnification may be modified through individual contracts. The Registrant shall not be required
to indemnify any director or executive officer in connection with any proceeding initiated by such
person unless (i)&nbsp;such indemnification is expressly required to be made by law, (ii)&nbsp;the proceeding
was authorized by the board of directors, or (iii)&nbsp;such indemnification is provided by the
Registrant, in its sole discretion, pursuant to Delaware law. The Registrant&#146;s Bylaws, as amended,
provide that the Registrant may indemnify its other officers, employees and agents as set forth in
Delaware law. The Registrant has the power to purchase insurance on behalf of any person required
or permitted to be indemnified pursuant to its Bylaws, as amended.
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;The Registrant has entered into agreements to indemnify its directors and executive officers,
in addition to indemnification provided for in the Registrant&#146;s Bylaws, as amended. These
agreements, among other things, provide for indemnification of the Registrant&#146;s directors and
executive officers for certain expenses (including attorneys&#146; fees), judgments, fines and
settlement amounts that any such person becomes legally obligated to pay because of any claims made
against or by such person in connection with any action or proceeding to which such person is, was,
or is threatened to be made a party by reason of the fact that such person serves or served as a
director, officer, employee or other agent of the Registrant or any other company or enterprise at
the request of the Registrant. The Registrant believes that these provisions and agreements are
necessary to attract and retain qualified persons as directors and executive officers.
</DIV>
<!-- link1 "Item&nbsp;7. EXEMPTION FROM REGISTRATION CLAIMED" -->
<DIV align="left"><A NAME="006"></A></DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 12pt"><B>Item&nbsp;7. EXEMPTION FROM REGISTRATION CLAIMED</B>
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Not applicable.
</DIV>
<!-- link1 "Item&nbsp;8. EXHIBITS" -->
<DIV align="left"><A NAME="007"></A></DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 12pt"><B>Item&nbsp;8. EXHIBITS</B>
</DIV>

<DIV align="center">
<TABLE style="font-size: 10pt" cellspacing="0" border="0" cellpadding="0" width="100%">
<!-- Begin Table Head -->
<TR valign="bottom">
    <TD width="5%">&nbsp;</TD>
    <TD width="4%">&nbsp;</TD>
    <TD width="91%">&nbsp;</TD>
</TR>
<TR style="font-size: 8pt" valign="bottom">
    <TD nowrap align="left"><B>Exhibit</B></TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">&nbsp;</TD>
</TR>
<TR style="font-size: 8pt" valign="bottom">
    <TD nowrap align="left"><B>Number</B></TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center"><B>Description</B></TD>
</TR>

<!-- End Table Head -->
<!-- Begin Table Body -->
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.1
</DIV></TD>
    <TD align="left">(1)&nbsp;</TD>
    <TD align="left" valign="top">Amended and Restated Certificate of Incorporation of the Registrant.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.1.1
</DIV></TD>
    <TD align="left">(2)&nbsp;</TD>
    <TD align="left" valign="top">Certificate of Amendment to Amended and Restated Certificate of Incorporation of the Registrant.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.1.2
</DIV></TD>
    <TD align="left">(3)&nbsp;</TD>
    <TD align="left" valign="top">Certificate of Amendment to Amended and Restated Certificate of Incorporation of the Registrant.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.2
</DIV></TD>
    <TD align="left">(1)&nbsp;</TD>
    <TD align="left" valign="top">Bylaws of the Registrant.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.3
</DIV></TD>
    <TD align="left">(3)&nbsp;</TD>
    <TD align="left" valign="top">Certificate of Ownership and Merger of the Registrant.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.4
</DIV></TD>
    <TD align="left">(4)&nbsp;</TD>
    <TD nowrap align="left" valign="top">Form of Common Stock Certificate.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">5.1
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Opinion of Cooley Godward LLP<FONT style="font-variant: SMALL-CAPS">.</FONT></TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">23.1
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Consent of Independent Registered Public Accounting Firm, with respect to Solexa, Inc.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">23.2
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Consent of Ernst &#038; Young LLP, Independent Auditors, with respect to Solexa Limited.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">23.3
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="left" valign="top">Consent of Cooley Godward LLP (contained in Exhibit&nbsp;5.1 to this Registration Statement).</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">24.1
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Power of Attorney (contained on the signature page to this Registration Statement).</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">99.1
</DIV></TD>
    <TD align="left">(5)&nbsp;</TD>
    <TD align="left" valign="top">1992 Stock Option Plan, as amended.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">99.2
</DIV></TD>
    <TD align="left">(6)&nbsp;</TD>
    <TD align="left" valign="top">2005 Equity Incentive Plan.</TD>
</TR>
<!-- End Table Body -->
</TABLE>
</DIV>



<DIV align="left">
<DIV style="font-size: 3pt; margin-top: 16pt; width: 18%; border-top: 1px solid #000000">&nbsp;</DIV>
</DIV>
<DIV align="left" style="font-size: 10pt">(1)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Quarterly Report on Form 10-Q for the quarter ended
June&nbsp;30, 2000, and incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(2)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Annual Report on Form 10-K for the period ended
December&nbsp;31, 2002, and incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(3)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Current Report on Form 8-K filed on March&nbsp;7, 2005, and
incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(4)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Quarterly Report on Form 10-Q for the quarter ended
March&nbsp;31, 2005, and incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(5)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Registration Statement on Form S-8 filed with
the SEC on July&nbsp;13, 2005 (File No.&nbsp;333-126579), and incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(6)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Current Report on Form 8-K filed on June&nbsp;9, 2005, and
incorporated herein by reference.
</DIV>









<DIV align="center" style="font-size: 10pt; margin-top: 18pt">II-3
</DIV>


<P align="center" style="font-size: 10pt">&nbsp;
</DIV>

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<DIV style="font-family: 'Times New Roman',Times,serif">
<!-- link1 "Item&nbsp;9. UNDERTAKINGS" -->
<DIV align="left"><A NAME="008"></A></DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 12pt"><B>Item&nbsp;9. UNDERTAKINGS</B>
</DIV>


<DIV style="margin-top: 6pt">
<TABLE width="100%" border="0" cellpadding="0" cellspacing="0" style="font-size: 10pt">

<TR valign="top" style="font-size: 10pt; color: #000000; background: transparent">
    <TD width="1%" nowrap align="left"><B>1.</B></TD>
    <TD width="1%">&nbsp;</TD>
    <TD>The undersigned registrant hereby undertakes:</TD>
</TR>

</TABLE>
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<B>(a)&nbsp;</B>To file, during any period in which offers or sales are being made, a post-effective
amendment to this registration statement:
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<B>(i) </B>To include any prospectus required by section 10(a)(3) of the Securities Act;
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<B>(ii) </B>To reflect in the prospectus any facts or events arising after the effective date of the
registration statement (or the most recent post-effective amendment thereof) which, individually or
in the aggregate, represent a fundamental change in the information set forth in the registration
statement. Notwithstanding the foregoing, any increase or decrease in volume of securities offered
(if the total dollar value of securities offered would not exceed that which was registered) and
any deviation from the low or high end of the estimated maximum offering range may be reflected in
the form of prospectus filed with the Commission pursuant to Rule 424(b) (&#167; 230.424(b) of this
chapter) if, in the aggregate, the changes in volume and price represent no more than a 20% change
in the maximum aggregate offering price set forth in the &#147;Calculation of Registration Fee&#148; table in
the effective registration statement.
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<B>(iii) </B>To include any material information with respect to the plan of distribution not
previously disclosed in the registration statement or any material change to such information in
the registration statement;
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<I>Provided, however, </I>that paragraphs (a)(i) and (a)(ii) do not apply if the information required
to be included in a post-effective amendment by those paragraphs is contained in periodic reports
filed by the issuer pursuant to section 13 or section 15(d) of the Exchange Act that are
incorporated by reference herein.
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<B>(b)&nbsp;</B>That, for the purpose of determining any liability under the Securities Act, each such
post-effective amendment shall be deemed to be a new registration statement relating to the
securities offered herein, and the offering of such securities at that time shall be deemed to be
the initial bona fide offering thereof.
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<B>(c)&nbsp;</B>To remove from registration by means of a post-effective amendment any of the securities
being registered which remain unsold at the termination of the offering.
</DIV>

<DIV style="margin-top: 6pt">
<TABLE width="100%" border="0" cellpadding="0" cellspacing="0" style="font-size: 10pt">

<TR valign="top" style="font-size: 10pt; color: #000000; background: transparent">
    <TD width="1%" nowrap align="left"><B>2.</B></TD>
    <TD width="1%">&nbsp;</TD>
    <TD>The undersigned registrant hereby undertakes that, for purposes of determining any liability
under the Securities Act, each filing of the registrant&#146;s annual report pursuant to Section
13(a) or Section 15(d) of the Exchange Act (and, where applicable, each filing of an employee
benefit plan&#146;s annual report pursuant to section 15(d) of the Exchange Act) that is
incorporated by reference in the Registration Statement shall be deemed to be a new
registration statement relating to the securities offered herein, and the offering of such
securities at that time shall be deemed to be the initial bona fide offering thereof.</TD>
</TR>

</TABLE>
</DIV>

<DIV style="margin-top: 6pt">
<TABLE width="100%" border="0" cellpadding="0" cellspacing="0" style="font-size: 10pt">

<TR valign="top" style="font-size: 10pt; color: #000000; background: transparent">
    <TD width="1%" nowrap align="left"><B>3.</B></TD>
    <TD width="1%">&nbsp;</TD>
    <TD>Insofar as indemnification for liabilities arising under the Securities Act may be permitted
to directors, officers and controlling persons of the registrant pursuant to the foregoing
provisions, or otherwise, the registrant has been advised that in the opinion of the
Securities and Exchange Commission such indemnification is against public policy as expressed
in the Securities Act and is, therefore, unenforceable. In the event that a claim for
indemnification against such liabilities (other than the payment by the registrant of expenses
incurred or paid by a director, officer or controlling person of the registrant in the
successful defense of any action, suit or proceeding) is asserted by such director, officer or
controlling person in connection with the securities being registered, the registrant will,
unless in the opinion of its counsel the matter has been settled by controlling precedent,
submit to a court of appropriate jurisdiction the question whether such indemnification by it
is against public policy as expressed in the Securities Act and will be governed by the final
adjudication of such issue.</TD>
</TR>

</TABLE>
</DIV>

<DIV align="center" style="font-size: 10pt; margin-top: 18pt">II-4
</DIV>


<P align="center" style="font-size: 10pt">&nbsp;
</DIV>

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<DIV style="font-family: 'Times New Roman',Times,serif">



<!-- link1 "SIGNATURES" -->
<DIV align="left"><A NAME="009"></A></DIV>

<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><B>SIGNATURES</B>
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Pursuant to the requirements of the Securities Act of 1933, as amended, the Registrant
certifies that it has reasonable grounds to believe that it meets all of the requirements for
filing on Form S-8 and has duly caused this Registration Statement to be signed on its behalf by
the undersigned, thereunto duly authorized, in the City of Hayward, State of California, on August
11, 2005.
</DIV>
<DIV align="center">
<TABLE style="font-size: 10pt" cellspacing="0" border="0" cellpadding="0" width="100%">
<!-- Begin Table Head -->
<TR valign="bottom">
    <TD width="58%">&nbsp;</TD>
    <TD width="1%">&nbsp;</TD>
    <TD width="3%">&nbsp;</TD>
    <TD width="1%">&nbsp;</TD>
    <TD width="37%">&nbsp;</TD>
</TR>
<!-- End Table Head -->
<!-- Begin Table Body -->
<TR valign="bottom">
    <TD valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD colspan="3" valign="top" align="left"><FONT style="font-variant: SMALL-CAPS"><B>Solexa, Inc.</B></FONT></TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="right" valign="top">By:
</TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">/s/ John West</TD>
</TR>
<TR style="font-size: 1px">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="right" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top" style="border-top: 1px solid #000000">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="right" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top"><FONT style="font-variant: SMALL-CAPS">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;John West</FONT><br>
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Chief Executive Officer and Director</TD>
</TR>
<!-- End Table Body -->
</TABLE>
</DIV>

<DIV align="center" style="font-size: 10pt; margin-top: 18pt">II-5
</DIV>


<P align="center" style="font-size: 10pt">&nbsp;
</DIV>

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<H5 align="left" style="page-break-before:always"><A HREF="#toc">Table of Contents</A></H5><P>
<DIV style="font-family: 'Times New Roman',Times,serif">

<!-- link1 "POWER OF ATTORNEY" -->
<DIV align="left"><A NAME="010"></A></DIV>

<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><B>POWER OF ATTORNEY</B>
</DIV>


<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<FONT style="font-variant: SMALL-CAPS"><B>Know All Persons By These Presents</B>,</FONT> that each person whose signature appears below
constitutes and appoints John West and Linda M. Rubinstein, and each or any one of them, his true
and lawful attorney-in-fact and agent, with full power of substitution and resubstitution, for him
and in his name, place and stead, in any and all capacities, to sign any and all amendments
(including post-effective amendments) to this Registration Statement, and to file the same, with
all exhibits thereto, and other documents in connection therewith, with the Securities and Exchange
Commission, granting unto said attorneys-in-fact and agents, and each of them, full power and
authority to do and perform each and every act and thing requisite and necessary to be done in
connection therewith, as fully to all intents and purposes as he might or could do in person,
hereby ratifying and confirming all that said attorneys-in-fact and agents, or any of them, or
their or his substitutes or substitute, may lawfully do or cause to be done by virtue hereof.
</DIV>

<DIV align="left" style="font-size: 10pt; margin-top: 6pt">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Pursuant to the requirements of the Securities Act of 1933, this Registration Statement has
been signed by the following persons in the capacities and on the dates indicated.
</DIV>
<DIV align="center">
<TABLE style="font-size: 10pt" cellspacing="0" border="0" cellpadding="0" width="100%">
<!-- Begin Table Head -->
<TR valign="bottom">
    <TD width="30%">&nbsp;</TD>
    <TD width="7%">&nbsp;</TD>
    <TD width="30%">&nbsp;</TD>
    <TD width="8%">&nbsp;</TD>
    <TD width="25%">&nbsp;</TD>
</TR>
<TR style="font-size: 8pt" valign="bottom">
    <TD nowrap align="center"><B>Signature</B></TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center"><B>Title</B></TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center"><B>Date</B></TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->

    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<!-- End Table Head -->
<!-- Begin Table Body -->
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">/s/ John West
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD rowspan="3" align="left" valign="top">Chief Executive Officer
and <br>Director <I>(Principal
Executive<br>Officer)</I>
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">August&nbsp;11, 2005</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top" style="border-top: 1px solid #000000"><DIV style="margin-left:0px; text-indent:-0px"><FONT style="font-variant: SMALL-CAPS">John West</FONT></DIV></TD>
    <TD>&nbsp;</TD>

    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->

    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->

    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">/s/ Linda M. Rubinstein
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD rowspan="3" align="left" valign="top">Chief Financial
Officer<br><I>(Principal Financial and<br>Accounting Officer)</I>
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">August&nbsp;11, 2005</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top" style="border-top: 1px solid #000000"><DIV style="margin-left:0px; text-indent:-0px"><FONT style="font-variant: SMALL-CAPS">Linda M. Rubinstein</FONT>
</DIV></TD>
    <TD>&nbsp;</TD>

    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">&nbsp;</DIV></TD>
    <TD>&nbsp;</TD>

    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">/s/ Craig C. Taylor
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Chairman of the Board
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">August&nbsp;11, 2005</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top" style="border-top: 1px solid #000000"><DIV style="margin-left:0px; text-indent:-0px"><FONT style="font-variant: SMALL-CAPS">Craig C. Taylor</FONT></DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">&nbsp;</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">/s/ Genghis Lloyd-Harris
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Director
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">August&nbsp;11, 2005</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top" style="border-top: 1px solid #000000"><DIV style="margin-left:0px; text-indent:-0px"><FONT style="font-variant: SMALL-CAPS">Genghis Lloyd-Harris</FONT></DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">&nbsp;</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Director
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">August &#95;&#95;&#95;, 2005</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top" style="border-top: 1px solid #000000"><DIV style="margin-left:0px; text-indent:-0px"><FONT style="font-variant: SMALL-CAPS">Stephen D. Allen</FONT></DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">&nbsp;</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">/s/ H. Hauser
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Director
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">August&nbsp;11, 2005</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top" style="border-top: 1px solid #000000"><DIV style="margin-left:0px; text-indent:-0px"><FONT style="font-variant: SMALL-CAPS">Hermann Hauser</FONT></DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">&nbsp;</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">/s/ G. Mason Morfit
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Director
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">August&nbsp;11, 2005</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top" style="border-top: 1px solid #000000"><DIV style="margin-left:0px; text-indent:-0px"><FONT style="font-variant: SMALL-CAPS">G. Mason Morfit</FONT></DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom"><!-- Blank Space -->
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">&nbsp;</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<TR valign="bottom">
    <TD valign="top"><DIV style="margin-left:0px; text-indent:-0px">/s/ Douglas M. Fambrough
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Director
</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">August&nbsp;11, 2005</TD>
</TR>
<TR valign="bottom">
    <TD align="center" valign="top" style="border-top: 1px solid #000000"><DIV style="margin-left:0px; text-indent:-0px"><FONT style="font-variant: SMALL-CAPS">Douglas M. Fambrough</FONT></DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">&nbsp;</TD>
    <TD>&nbsp;</TD>
    <TD align="center" valign="top">&nbsp;</TD>
</TR>
<!-- End Table Body -->
</TABLE>
</DIV>


<DIV align="center" style="font-size: 10pt; margin-top: 18pt">II-6
</DIV>


<P align="center" style="font-size: 10pt">&nbsp;
</DIV>

<!-- PAGEBREAK -->
<P><HR noshade><P>
<H5 align="left" style="page-break-before:always"><A HREF="#toc">Table of Contents</A></H5><P>

<DIV style="font-family: 'Times New Roman',Times,serif">




<DIV align="center" style="font-size: 10pt; margin-top: 18pt"><B>EXHIBIT INDEX</B>
</DIV>

<DIV align="center">
<TABLE style="font-size: 10pt" cellspacing="0" border="0" cellpadding="0" width="100%">
<!-- Begin Table Head -->
<TR valign="bottom">
    <TD width="5%">&nbsp;</TD>
    <TD width="4%">&nbsp;</TD>
    <TD width="91%">&nbsp;</TD>
</TR>
<TR style="font-size: 8pt" valign="bottom">
    <TD nowrap align="left"><B>Exhibit</B></TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center">&nbsp;</TD>
</TR>
<TR style="font-size: 8pt" valign="bottom">
    <TD nowrap align="left"><B>Number</B></TD>
    <TD>&nbsp;</TD>
    <TD nowrap align="center"><B>Description</B></TD>
</TR>

<!-- End Table Head -->
<!-- Begin Table Body -->
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.1
</DIV></TD>
    <TD align="left">(1)&nbsp;</TD>
    <TD align="left" valign="top">Amended and Restated Certificate of Incorporation.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.1.1
</DIV></TD>
    <TD align="left">(2)&nbsp;</TD>
    <TD align="left" valign="top">Certificate of Amendment to Amended and Restated Certificate of Incorporation.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.1.2
</DIV></TD>
    <TD align="left">(3)&nbsp;</TD>
    <TD align="left" valign="top">Certificate of Amendment to Amended and Restated Certificate of Incorporation.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.2
</DIV></TD>
    <TD align="left">(1)&nbsp;</TD>
    <TD align="left" valign="top">Bylaws of the Registrant.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.3
</DIV></TD>
    <TD align="left">(3)&nbsp;</TD>
    <TD align="left" valign="top">Certificate of Ownership and Merger of the Registrant.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">4.4
</DIV></TD>
    <TD align="left">(4)&nbsp;</TD>
    <TD align="left" valign="top">Form of Common Stock Certificate.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">5.1
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Opinion of Cooley Godward LLP<FONT style="font-variant: SMALL-CAPS">.</FONT></TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">23.1
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Consent of Independent Registered Public Accounting Firm, with
respect to Solexa, Inc.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">23.2
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Consent of Ernst &#038; Young LLP, Independent Auditors, with respect to Solexa Limited.</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">23.3
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Consent of Cooley Godward LLP (contained in Exhibit&nbsp;5.1 to this Registration Statement).</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">24.1
</DIV></TD>
    <TD>&nbsp;</TD>
    <TD align="left" valign="top">Power of Attorney (contained on the signature page to this Registration Statement).</TD>
</TR>
<TR valign="bottom">
    <TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">99.1
</DIV></TD>
    <TD align="left">(5)&nbsp;</TD>
    <TD align="left" valign="top">1992 Stock Option Plan, as amended.</TD>
</TR>
<TR valign="bottom">

<TD nowrap align="right" valign="top"><DIV style="margin-left:0px; text-indent:-0px">99.2
</DIV></TD>
    <TD>(6)&nbsp;</TD>
    <TD align="left" valign="top">2005 Equity Incentive Plan.</TD>
</TR>
<!-- End Table Body -->
</TABLE>
</DIV>



<DIV align="left">
<DIV style="font-size: 3pt; margin-top: 16pt; width: 18%; border-top: 1px solid #000000">&nbsp;</DIV>
</DIV>
<DIV align="left" style="font-size: 10pt">(1)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Quarterly Report on Form 10-Q for the quarter ended
June&nbsp;30, 2000, and incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(2)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Annual Report on Form 10-K for the period ended
December&nbsp;31, 2002, and incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(3)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Current Report on Form 8-K filed on March&nbsp;7, 2005, and
incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(4)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Quarterly Report on Form 10-Q for the quarter ended
March&nbsp;31, 2005, and incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(5)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Registration Statement on Form S-8 filed with
the SEC on July&nbsp;13, 2005 (File No.&nbsp;333-126579), and incorporated herein by reference.
</DIV>
<DIV align="left" style="font-size: 10pt">(6)&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Filed as an exhibit to Registrant&#146;s Current Report on Form 8-K filed on June&nbsp;9, 2005, and
incorporated herein by reference.
</DIV>







<P align="center" style="font-size: 10pt">&nbsp;
</DIV>
</BODY>
</HTML>
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sv8
Table of Contents
As filed with the Securities and Exchange Commission on August 11, 2005
Registration No. 333-
UNITED STATES
SECURITIES AND EXCHANGE COMMISSION
Washington, D.C. 20549
FORM S-8
REGISTRATION STATEMENT
AND
POST-EFFECTIVE AMENDMENT NO. 1 TO REGISTRATION
STATEMENTS
NO. 33-86634, 33-94872, 333-21997, 333-59157, 333-39480, 333-63804, 333-100793, 333-106196, AND 333-126579
UNDER
THE SECURITIES ACT OF 1933
SOLEXA, INC.
(Exact name of registrant as specified in its charter)
Delaware
94-3161073
(State of Incorporation)
(I.R.S. Employer Identification No.)
25861 Industrial Blvd.
Hayward, California 94545
(Address of principal executive offices)
1992 Stock Option Plan
2005 Equity Incentive Plan
(Full title of the plans)
John West
Chief Executive Officer
Solexa, Inc.
25861 Industrial Blvd.
Hayward, California 94545
(510) 670-9300
(Name, address, including zip code, and telephone number, including area code, of agent for service)
Copies to:
James C. Kitch, Esq.
Cooley Godward LLP
Five Palo Alto Square
3000 El Camino Real
Palo Alto, CA 94306-2155
(650) 843-5000
CALCULATION OF REGISTRATION FEE
Proposed Maximum
Proposed Maximum
Title of Securities
Amount to be
Offering
Aggregate
Amount of
to be Registered
Registered
Price per Share
Offering Price
Registration Fee
Common Stock, par value $0,01 per share
Shares not previously registered
1,800,000(1)
$4.83(2)
$8,694,000.00(2)
$1,023.28(2)
Shares previously registered
1,350,504(1)
N/A(3)
N/A(3)
N/A(3)
This Registration Statement is (a) a new registration statement; (b) a Post-Effective Amendment
No. 1 to the registrant's registration statement on Form S-8 (File No. 33-86634), as filed with the
Securities and Exchange Commission on November 22, 1994 (the "1994 Registration Statement"); (c) a
Post-Effective Amendment No. 1 to the registrant's registration statement on Form S-8 (File No.
33-94872), as filed with the Securities and Exchange Commission on July 24, 1995 (the "1995
Registration Statement"); (d) a Post-Effective Amendment No. 1 to the registrant's registration
statement on Form S-8 (File No. 333-21997), as filed with the Securities and Exchange Commission on
February 19, 1997 (the "1997 Registration Statement"); (e) a Post-Effective Amendment No. 1 to the
registrant's registration statement on Form S-8 (File No. 333-59157), as filed with the Securities
and Exchange Commission on July 15, 1998 (the "1998 Registration Statement"); (f) a Post-Effective
Amendment No. 1 to the registrant's registration statement on Form S-8 (File No. 333-39480), as
filed with the Securities and Exchange Commission on June 16, 2000 (the "2000 Registration
Statement"); (g) a Post-Effective Amendment No. 1 to the registrant's registration statement on
Form S-8 (File No. 333-63804), as filed with the Securities and Exchange Commission on June 25,
2001 (the "2001 Registration Statement"); (h) a Post-Effective Amendment No. 1 to the registrant's
registration statement on Form S-8 (File No. 333-100793), as filed with the Securities and Exchange
Commission on October 28, 2002 (the "2002 Registration Statement"); (i) a Post-Effective Amendment
No. 1 to the registrant's registration statement on Form S-8 (File No. 333-106196), as filed with
the Securities and Exchange Commission on June 17, 2003 (the "2003 Registration Statement"); and
(j) a Post-Effective Amendment No. 1 to the registrant's registration statement on Form S-8 (File
No. 333-126579), as filed with the Securities and Exchange Commission on July 13, 2005 (the "2005
Registration Statement") (the 1994 Registration Statement, the 1995 Registration Statement, the
1997 Registration Statement, the 1998 Registration Statement, the 2000 Registration Statement, the
2001 Registration Statement, the 2002 Registration Statement, the 2003 Registration Statement and
the 2005 Registration Statement are collectively referred herein as the "Prior Registration
Statements"). Pursuant to the Prior Registration Statements, shares of common stock, par value
$0.01, were registered for issuance under the Registrant's 1992 Stock Option Plan, as amended (the
"Prior Plan").
(1) This Registration Statement covers 1,800,000 shares, not previously registered, under the
Solexa, Inc. 2005 Equity Incentive Plan (the "2005 Plan"), which is the successor plan to the Prior
Plan. In addition, this Registration Statement covers up to 1,350,504 shares which were previously
registered under the Prior Registration Statements for offer or sale under the Prior Plan and which
may be offered or sold under the 2005 Plan (the "Carried Forward Shares"). The Carried Forward
Shares consist of shares remaining available for issuance under the Prior Plan and shares subject
to currently outstanding options under the Prior Plan. In the event any of these shares subject to
outstanding options are not issued under the Prior Plan, such as when an option granted under the
Prior Plan is canceled without being exercised, such shares will become available for issuance
under the 2005 Plan. Pursuant to Rule 416(a) of the Securities Act of 1933, as amended (the
"Securities Act"), this Registration Statement shall also cover any additional shares of
Registrant's Common Stock that become issuable under the 2005 Plan by reason of any stock dividend,
stock split, recapitalization or other similar transaction effected without receipt of
consideration that increases the number of outstanding shares of Registrant's Common Stock.
(2) Estimated solely for the purpose of calculating the amount of the registration fee pursuant to
Rule 457(h) of the Securities Act. The price per share and aggregate offering price are based upon
the average of the high and low prices of Registrant's Common Stock on August 5, 2005 as reported
on the Nasdaq SmallCap Market, in accordance with Rule 457(c) of the Securities Act.
(3) The Carried Forward Shares were previously registered under the Prior Registration
Statements; therefore, no filing fee with respect to those shares is required (Interpretation 89
under Section G of the Securities and Exchange Commission Division of Corporate Finance Manual of
Publicly Available Telephone Interpretations (July 1997) and Instruction E to the General
Instructions to Form S-8). The Post-Effective Amendments to the Prior Registration Statements are
filed here to reallocate the Carried Forward Shares from the Prior Registration Statements and to
carry over the registration fees paid for the Carried Forward Shares from the Prior Registration
Statements.
TABLE OF CONTENTS
PART II
STATEMENT PURSUANT TO GENERAL INSTRUCTION E TO FORM S-8
Item 3. INCORPORATION OF CERTAIN DOCUMENTS BY REFERENCE
Item 4. DESCRIPTION OF SECURITIES
Item 5. INTERESTS OF NAMED EXPERTS AND COUNSEL
Item 6. INDEMNIFICATION OF DIRECTORS AND OFFICERS
Item 7. EXEMPTION FROM REGISTRATION CLAIMED
Item 8. EXHIBITS
Item 9. UNDERTAKINGS
SIGNATURES
POWER OF ATTORNEY
EXHIBIT 5.1
EXHIBIT 23.1
EXHIBIT 23.2
Table of Contents
PART II
STATEMENT PURSUANT TO GENERAL INSTRUCTION E TO FORM S-8
Solexa, Inc. (the "Registrant") has filed this registration statement to register under the
Securities Act the offer and sale of 1,800,000 common shares, par value $0.01 per share, of
beneficial interest, not previously registered, in the Registrant, and up to 1,350,504 common
shares, par value $0.01 per share, which were previously registered (as further described below) of
beneficial interest in the Registrant, pursuant to the Solexa, Inc. 2005 Equity Incentive Plan (the
"2005 Plan"). This registration statement is (a) a new registration statement; (b) a Post-Effective
Amendment No. 1 to the 1994 Registration Statement; (c) a Post-Effective Amendment No. 1 to the
1995 Registration Statement; (d) a Post-Effective Amendment No. 1 to the 1997 Registration
Statement; (e) a Post-Effective Amendment No. 1 to the 1998 Registration Statement; (f) a
Post-Effective Amendment No. 1 to the 2000 Registration Statement; (g) a Post-Effective Amendment
No. 1 to the 2001 Registration Statement; (h) a Post-Effective Amendment No. 1 to the 2002
Registration Statement; (i) a Post-Effective Amendment No. 1 to the 2003 Registration Statement;
and (j) a Post-Effective Amendment No. 1 to the 2005 Registration Statement (the 1994 Registration
Statement, the 1995 Registration Statement, the 1997 Registration Statement, the 1998 Registration
Statement, the 2000 Registration Statement, the 2001 Registration Statement, the 2002 Registration
Statement, the 2003 Registration Statement and the 2005 Registration Statement are collectively
referred herein as the "Prior Registration Statements"). 1,350,504 shares registered hereby were
previously registered under the Prior Registration Statements for offer and sale pursuant to the
Registrant's 1992 Stock Option Plan, as amended (the "Prior Plan").
The 2005 Plan was approved and adopted at the Registrant's annual meeting of stockholders on
July 7, 2005 to supersede and replace the Prior Plan. The Registrant desires to have the shares of
common stock registered hereunder and issuable pursuant to the 2005 Plan to include those shares of
common stock described above whose offer and sale were registered under the Prior Registration
Statements. The shares carried over from the Prior Registration Statements are no longer available
for new awards under the Prior Plan. This Registration Statement covers 1,800,000 shares, not
previously registered, under the 2005 Plan, which is the successor plan to the Prior Plan. In
addition, this Registration Statement covers up to 1,350,504 shares which were previously
registered under the Prior Registration Statements for offer or sale under the Prior Plan and which
may be offered or sold under the 2005 Plan (the "Carried Forward Shares"). The Carried Forward
Shares consist of shares remaining available for issuance under the Prior Plan and shares subject
to currently outstanding options under the Prior Plan. In the event any of these shares subject to
outstanding options are not issued under the Prior Plan, such as when an option granted under the
Prior Plan is canceled without being exercised, such shares will become available for issuance
under the 2005 Plan. Pursuant to Rule 416(a) of the Securities Act, this Registration Statement
shall also cover any additional shares of the Registrant's Common Stock that become issuable under
the 2005 Plan and the Prior Plan by reason of any stock dividend, stock split, recapitalization or
other similar transaction effected without receipt of consideration that increases the number of
outstanding shares of the Registrant's Common Stock.
Consequently, in accordance with the Interpretation 89 under Section G of the Securities and
Exchange Commission Division of Corporate Finance Manual of Publicly Available Telephone
Interpretations (July 1997) and Instruction E to the General Instructions to Form S-8: (a) the
Registrant is (i) carrying over the Carried Forward Shares from the Prior Registration Statements,
and (ii) registering the offer and sale of 1,800,000 new common shares, of which all 3,150,504
shares may be offered and sold under the 2005 Plan pursuant to this registration statement; (b) the
registration fee allocable to the Carried Forward Shares carried over from the Prior Registration
Statements and paid in connection with the Prior Registration Statements is carried over in this
Registration Statement; and (c) the Prior Registration Statements are being amended on a
post-effective basis to disclose the succession of the 2005 Plan to the Prior Plan, pursuant to
this Registration Statement.
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Item 3. INCORPORATION OF CERTAIN DOCUMENTS BY REFERENCE
The following documents filed by Solexa, Inc. (the "Registrant") with the Securities and
Exchange Commission (the "SEC") are incorporated by reference into this Registration Statement of
Form S-8:
(a) Registrant's Annual Report on Form 10-K for the fiscal year ended December 31, 2004 (File
No. 000-22570), filed with the SEC on March 31, 2005;
(b) Registrant's Quarterly Report on Form 10-Q for the quarterly period ended March 31, 2005
(File No. 000-22570), filed with the SEC on May 23, 2005;
(c) Registrant's Current Reports on Form 8-K (File No. 000-22570), filed with the SEC on
January 3, 2005, January 10, 2005, March 7, 2005 (as amended by Amendment No. 1 to Current Report
on Form 8-K/A filed with the SEC on May 20, 2005), March 29, 2005, April 8, 2005, April 26, 2005,
May 11, 2005, May 23, 2005, June 9, 2005, June 28, 2005 and July 15, 2005; and
(d) The description of the Registrant's Common Stock contained in the Registrant's
Registration Statement on Form 10 (File No. 000-22570), filed with the SEC on October 5, 1993,
including any amendment or report filed for the purpose of updating such description.
All reports and other documents subsequently filed by the Registrant pursuant to Sections
13(a), 13(c), 14 and 15(d) of the Securities Exchange Act of 1934, as amended, prior to the filing
of a post-effective amendment which indicates that all securities offered have been sold or which
deregisters all securities then remaining unsold, shall be deemed to be incorporated by reference
herein and to be a part of this registration statement from the date of the filing of such reports
and documents.
Item 4. DESCRIPTION OF SECURITIES
Not applicable.
Item 5. INTERESTS OF NAMED EXPERTS AND COUNSEL
Not applicable.
Item 6. INDEMNIFICATION OF DIRECTORS AND OFFICERS
Article VI of the Registrant's Amended and Restated Certificate of Incorporation, as amended,
provides that, to the fullest extent permitted by the General Corporation Law of Delaware, as the
same now exists or may hereafter be amended, a director of the Registrant shall not be personally
liable to the corporation or its stockholders for monetary damages for breach of fiduciary duty as
a director. Delaware law provides that directors of a corporation will not be personally liable for
monetary damages for breach of their fiduciary duties as directors, except for liability:
•
for any breach of their duty of loyalty to the corporation or its stockholders,
•
for acts or omissions not in good faith or that involve intentional misconduct or a
knowing violation of law,
•
for unlawful payments of dividends or unlawful stock repurchases or redemptions, or
•
for any transaction from which the director derived an improper personal benefit.
The Registrant's Bylaws, as amended, provide that the Registrant shall indemnify its directors
and executive officers to the fullest extent not prohibited by Delaware law or other applicable
law, though the extent of
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indemnification may be modified through individual contracts. The Registrant shall not be required
to indemnify any director or executive officer in connection with any proceeding initiated by such
person unless (i) such indemnification is expressly required to be made by law, (ii) the proceeding
was authorized by the board of directors, or (iii) such indemnification is provided by the
Registrant, in its sole discretion, pursuant to Delaware law. The Registrant's Bylaws, as amended,
provide that the Registrant may indemnify its other officers, employees and agents as set forth in
Delaware law. The Registrant has the power to purchase insurance on behalf of any person required
or permitted to be indemnified pursuant to its Bylaws, as amended.
The Registrant has entered into agreements to indemnify its directors and executive officers,
in addition to indemnification provided for in the Registrant's Bylaws, as amended. These
agreements, among other things, provide for indemnification of the Registrant's directors and
executive officers for certain expenses (including attorneys' fees), judgments, fines and
settlement amounts that any such person becomes legally obligated to pay because of any claims made
against or by such person in connection with any action or proceeding to which such person is, was,
or is threatened to be made a party by reason of the fact that such person serves or served as a
director, officer, employee or other agent of the Registrant or any other company or enterprise at
the request of the Registrant. The Registrant believes that these provisions and agreements are
necessary to attract and retain qualified persons as directors and executive officers.
Item 7. EXEMPTION FROM REGISTRATION CLAIMED
Not applicable.
Item 8. EXHIBITS
Exhibit
Number
Description
4.1
(1)
Amended and Restated Certificate of Incorporation of the Registrant.
4.1.1
(2)
Certificate of Amendment to Amended and Restated Certificate of Incorporation of the Registrant.
4.1.2
(3)
Certificate of Amendment to Amended and Restated Certificate of Incorporation of the Registrant.
4.2
(1)
Bylaws of the Registrant.
4.3
(3)
Certificate of Ownership and Merger of the Registrant.
4.4
(4)
Form of Common Stock Certificate.
5.1
Opinion of Cooley Godward LLP
.
23.1
Consent of Independent Registered Public Accounting Firm, with respect to Solexa, Inc.
23.2
Consent of Ernst & Young LLP, Independent Auditors, with respect to Solexa Limited.
23.3
Consent of Cooley Godward LLP (contained in Exhibit 5.1 to this Registration Statement).
24.1
Power of Attorney (contained on the signature page to this Registration Statement).
99.1
(5)
1992 Stock Option Plan, as amended.
99.2
(6)
2005 Equity Incentive Plan.
(1)     Filed as an exhibit to Registrant's Quarterly Report on Form 10-Q for the quarter ended
June 30, 2000, and incorporated herein by reference.
(2)     Filed as an exhibit to Registrant's Annual Report on Form 10-K for the period ended
December 31, 2002, and incorporated herein by reference.
(3)     Filed as an exhibit to Registrant's Current Report on Form 8-K filed on March 7, 2005, and
incorporated herein by reference.
(4)     Filed as an exhibit to Registrant's Quarterly Report on Form 10-Q for the quarter ended
March 31, 2005, and incorporated herein by reference.
(5)     Filed as an exhibit to Registrant's Registration Statement on Form S-8 filed with
the SEC on July 13, 2005 (File No. 333-126579), and incorporated herein by reference.
(6)     Filed as an exhibit to Registrant's Current Report on Form 8-K filed on June 9, 2005, and
incorporated herein by reference.
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Item 9. UNDERTAKINGS
1.
The undersigned registrant hereby undertakes:
(a)
To file, during any period in which offers or sales are being made, a post-effective
amendment to this registration statement:
(i)
To include any prospectus required by section 10(a)(3) of the Securities Act;
(ii)
To reflect in the prospectus any facts or events arising after the effective date of the
registration statement (or the most recent post-effective amendment thereof) which, individually or
in the aggregate, represent a fundamental change in the information set forth in the registration
statement. Notwithstanding the foregoing, any increase or decrease in volume of securities offered
(if the total dollar value of securities offered would not exceed that which was registered) and
any deviation from the low or high end of the estimated maximum offering range may be reflected in
the form of prospectus filed with the Commission pursuant to Rule 424(b) (§ 230.424(b) of this
chapter) if, in the aggregate, the changes in volume and price represent no more than a 20% change
in the maximum aggregate offering price set forth in the "Calculation of Registration Fee" table in
the effective registration statement.
(iii)
To include any material information with respect to the plan of distribution not
previously disclosed in the registration statement or any material change to such information in
the registration statement;
Provided, however,
that paragraphs (a)(i) and (a)(ii) do not apply if the information required
to be included in a post-effective amendment by those paragraphs is contained in periodic reports
filed by the issuer pursuant to section 13 or section 15(d) of the Exchange Act that are
incorporated by reference herein.
(b)
That, for the purpose of determining any liability under the Securities Act, each such
post-effective amendment shall be deemed to be a new registration statement relating to the
securities offered herein, and the offering of such securities at that time shall be deemed to be
the initial bona fide offering thereof.
(c)
To remove from registration by means of a post-effective amendment any of the securities
being registered which remain unsold at the termination of the offering.
2.
The undersigned registrant hereby undertakes that, for purposes of determining any liability
under the Securities Act, each filing of the registrant's annual report pursuant to Section
13(a) or Section 15(d) of the Exchange Act (and, where applicable, each filing of an employee
benefit plan's annual report pursuant to section 15(d) of the Exchange Act) that is
incorporated by reference in the Registration Statement shall be deemed to be a new
registration statement relating to the securities offered herein, and the offering of such
securities at that time shall be deemed to be the initial bona fide offering thereof.
3.
Insofar as indemnification for liabilities arising under the Securities Act may be permitted
to directors, officers and controlling persons of the registrant pursuant to the foregoing
provisions, or otherwise, the registrant has been advised that in the opinion of the
Securities and Exchange Commission such indemnification is against public policy as expressed
in the Securities Act and is, therefore, unenforceable. In the event that a claim for
indemnification against such liabilities (other than the payment by the registrant of expenses
incurred or paid by a director, officer or controlling person of the registrant in the
successful defense of any action, suit or proceeding) is asserted by such director, officer or
controlling person in connection with the securities being registered, the registrant will,
unless in the opinion of its counsel the matter has been settled by controlling precedent,
submit to a court of appropriate jurisdiction the question whether such indemnification by it
is against public policy as expressed in the Securities Act and will be governed by the final
adjudication of such issue.
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SIGNATURES
Pursuant to the requirements of the Securities Act of 1933, as amended, the Registrant
certifies that it has reasonable grounds to believe that it meets all of the requirements for
filing on Form S-8 and has duly caused this Registration Statement to be signed on its behalf by
the undersigned, thereunto duly authorized, in the City of Hayward, State of California, on August
11, 2005.
Solexa, Inc.
By:
/s/ John West
John West
Chief Executive Officer and Director
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POWER OF ATTORNEY
Know All Persons By These Presents
,
that each person whose signature appears below
constitutes and appoints John West and Linda M. Rubinstein, and each or any one of them, his true
and lawful attorney-in-fact and agent, with full power of substitution and resubstitution, for him
and in his name, place and stead, in any and all capacities, to sign any and all amendments
(including post-effective amendments) to this Registration Statement, and to file the same, with
all exhibits thereto, and other documents in connection therewith, with the Securities and Exchange
Commission, granting unto said attorneys-in-fact and agents, and each of them, full power and
authority to do and perform each and every act and thing requisite and necessary to be done in
connection therewith, as fully to all intents and purposes as he might or could do in person,
hereby ratifying and confirming all that said attorneys-in-fact and agents, or any of them, or
their or his substitutes or substitute, may lawfully do or cause to be done by virtue hereof.
Pursuant to the requirements of the Securities Act of 1933, this Registration Statement has
been signed by the following persons in the capacities and on the dates indicated.
Signature
Title
Date
/s/ John West
Chief Executive Officer
and
Director
(Principal
Executive
Officer)
August 11, 2005
John West
/s/ Linda M. Rubinstein
Chief Financial
Officer
(Principal Financial and
Accounting Officer)
August 11, 2005
Linda M. Rubinstein
/s/ Craig C. Taylor
Chairman of the Board
August 11, 2005
Craig C. Taylor
/s/ Genghis Lloyd-Harris
Director
August 11, 2005
Genghis Lloyd-Harris
Director
August ___, 2005
Stephen D. Allen
/s/ H. Hauser
Director
August 11, 2005
Hermann Hauser
/s/ G. Mason Morfit
Director
August 11, 2005
G. Mason Morfit
/s/ Douglas M. Fambrough
Director
August 11, 2005
Douglas M. Fambrough
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EXHIBIT INDEX
Exhibit
Number
Description
4.1
(1)
Amended and Restated Certificate of Incorporation.
4.1.1
(2)
Certificate of Amendment to Amended and Restated Certificate of Incorporation.
4.1.2
(3)
Certificate of Amendment to Amended and Restated Certificate of Incorporation.
4.2
(1)
Bylaws of the Registrant.
4.3
(3)
Certificate of Ownership and Merger of the Registrant.
4.4
(4)
Form of Common Stock Certificate.
5.1
Opinion of Cooley Godward LLP
.
23.1
Consent of Independent Registered Public Accounting Firm, with
respect to Solexa, Inc.
23.2
Consent of Ernst & Young LLP, Independent Auditors, with respect to Solexa Limited.
23.3
Consent of Cooley Godward LLP (contained in Exhibit 5.1 to this Registration Statement).
24.1
Power of Attorney (contained on the signature page to this Registration Statement).
99.1
(5)
1992 Stock Option Plan, as amended.
99.2
(6)
2005 Equity Incentive Plan.
(1)     Filed as an exhibit to Registrant's Quarterly Report on Form 10-Q for the quarter ended
June 30, 2000, and incorporated herein by reference.
(2)     Filed as an exhibit to Registrant's Annual Report on Form 10-K for the period ended
December 31, 2002, and incorporated herein by reference.
(3)     Filed as an exhibit to Registrant's Current Report on Form 8-K filed on March 7, 2005, and
incorporated herein by reference.
(4)     Filed as an exhibit to Registrant's Quarterly Report on Form 10-Q for the quarter ended
March 31, 2005, and incorporated herein by reference.
(5)     Filed as an exhibit to Registrant's Registration Statement on Form S-8 filed with
the SEC on July 13, 2005 (File No. 333-126579), and incorporated herein by reference.
(6)     Filed as an exhibit to Registrant's Current Report on Form 8-K filed on June 9, 2005, and
incorporated herein by reference.