Hello,
please try with a liveCd (ubuntu/windows)after that it should boot the OS you want to instal.
SOURCE: BOOTMGR is missing
DO NOT ACT until these details are confirmed. I have worked on many dual boot machines in my day -- however I never deleted the boot partition of a dual boot machine. What is the ultimate goal for this machine a single boot windows 2003 server or something else?
Dual boot machines are tricky as Vista was the first operating system on the machine I believe the option to boot the windows 2003 server partition was added to the boot.ini file in the Vista Partition -- assuming Vista maintains that tradition from Windows NT. If you want I could research the reconstruction of boot blocks, etc.
The repair would probably involve at a minimum using a partitioning program on bootable media to flag the Windows 2003 partition as the boot partition. What is required beyond that will require research.
Another option could be to install a third party boot controller such as System Commander which recognised operating systems in existing partitions and enabled them as a boot choices. That might be most viable only if you are considering adding another operating system to the machine to allow system commander to be installed. (similarly the boot.ini entry could be added after installation of a windows nt based operating system too)
A DOS boot disk with system commander on it may allow access to the Windows 2003 system as a work around but who has dos around anymore with an appropriate version of system commander for dos that would recognise windows 2003?
SOURCE: BOOTMGR is missing
This error can be corrected by reloading your Laptop's Operating System from the Restore disks you got with your computer. Place your Restore disk into the drive and restart the computer. The install will re-create the missing Boot Manager.
SOURCE: Bootmgr is missing on Windows XP System. Gateway
Download this Recovery Console BootCD
http://www.thecomputerparamedic.com/files/rc.iso
Burn the image (ISO) to CD.
Boot from the newly created Recovery Console BootCD
Log into the Administrator account (press 1 then press enter)
On the command prompt type: chkdsk c: /r (and then press enter) Note one space after "c:")
Once CheckDisk has finished repairing the faults, type Exit, and then Restart (remove the BootCD)
SOURCE: BOOTMGR is compressed. Press Ctrl+Alt+Del to
BOOTMGR is Compressed
http://img.roxio.com/enu/support/products/backontrack/resolving-bootmgr-error.pdf
follow the steps on the above link and resolve the issue..
It will surely work..
The link is very very helpfull
SOURCE: My acer Aspire One is
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If your Windows Vista computer has encountered the dreaded "BOOTMGR is
missing" error, you aren't alone. If the problem isn't hardware related you can
fix it with relative ease as long as you have a Windows Vista DVD handy.
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If you don't have one, you can create a Windows Vista repair disk follow the
steps,you can do that by using NERO or IMAGEburn,then click on browse for a file buttom and select the file
Put a blank cd in the drive and then click the write button
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now you have recovery cd.
HOW TO RUN REPAIR
BOOT FROM WINDOWS VISTA DVD
YOU CAN SELECT REPAIR FROM THE LIST ON THE LEFT
IT WILL TRY TO FIND INSTALLATION DVD DIRECTORY,IF THERE IS MORE THAN ONE SELECT THE CORRECT ONE AND PRESS THE NEXT BUTTON
CLICK ON THE FIRST OPTION START REPAIR 
IT WILL START REPAIRING AND AT THE END YOU WILL BE GETTING PROMPT TO RESTART THE COMPUTER
ALTERNATIVELY YOU COULD CHOOSE COMMAND PROMPT WRITE bootrec /fixboot
ONCE YOU WILL SEE :The operation completed successfully type exit and press enter take out the cd and restart the computer.
ENJOY! EVERYTHING WILL BE WORKING OK
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