WARNING: The partition is misaligned by 3072 bytes. This may result in very poor performance. Repartitioning is suggested

Can you give the output of:

sudo fdisk -l; mount; echo; lsb_release -a; uname -a

Thanks

This is what I got

knifer@Onlinesecrets:~$ sudo fdisk -l; mount; echo; lsb_release-a; uname -a
[sudo] password for knifer:

WARNING: GPT (GUID Partition Table) detected on '/dev/sda'! The util fdisk doesn't support GPT. Use GNU Parted.

Disk /dev/sda: 750.2 GB, 750156374016 bytes
255 heads, 63 sectors/track, 91201 cylinders, total 1465149168 sectors
Units = sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes
Disk identifier: 0xe942d0c5

   Device Boot Start End Blocks Id System
/dev/sda1 1 1465149167 732574583+ ee GPT
Partition 1 does not start on physical sector boundary.
/dev/sda1 on / type ext4 (rw,errors=remount-ro,commit=600)
proc on /proc type proc (rw,noexec,nosuid,nodev)
sysfs on /sys type sysfs (rw,noexec,nosuid,nodev)
fusectl on /sys/fs/fuse/connections type fusectl (rw)
none on /sys/kernel/debug type debugfs (rw)
none on /sys/kernel/security type securityfs (rw)
udev on /dev type devtmpfs (rw,mode=0755)
devpts on /dev/pts type devpts (rw,noexec,nosuid,gid=5,mode=0620)
tmpfs on /run type tmpfs (rw,noexec,nosuid,size=10%,mode=0755)
none on /run/lock type tmpfs (rw,noexec,nosuid,nodev,size=5242880)
none on /run/shm type tmpfs (rw,nosuid,nodev)
/dev/sda3 on /boot/efi type vfat (rw)
/dev/sda4 on /home type ext4 (rw,commit=600)
binfmt_misc on /proc/sys/fs/binfmt_misc type binfmt_misc (rw,noexec,nosuid,nodev)
gvfs-fuse-daemon on /home/knifer/.gvfs type fuse.gvfs-fuse-daemon (rw,nosuid,nodev,user=knifer)

lsb_release-a: command not found
Linux Onlinesecrets 3.0.0-14-generic #23-Ubuntu SMP Mon Nov 21 20:28:43 UTC 2011

oh, sorry I think this the correct one

gvfs-fuse-daemon on /home/knifer/.gvfs type fuse.gvfs-fuse-daemon (rw,nosuid,nodev,user=knifer)

No LSB modules are available.
Distributor ID: Ubuntu
Description: Ubuntu 11.10
Release: 11.10
Codename: oneiric
Linux Onlinesecrets 3.0.0-14-generic #23-Ubuntu SMP Mon Nov 21 20:28:43 UTC 2011 x86_64 x86_64 x86_64 GNU/Linux

oh, sorry I think this the correct one

gvfs-fuse-daemon on /home/knifer/.gvfs type fuse.gvfs-fuse-daemon (rw,nosuid,nodev,user=knifer)

No LSB modules are available.
Distributor ID: Ubuntu
Description: Ubuntu 11.10
Release: 11.10
Codename: oneiric
Linux Onlinesecrets 3.0.0-14-generic #23-Ubuntu SMP Mon Nov 21 20:28:43 UTC 2011 x86_64 x86_64 x86_64 GNU/Linux

I accidentally hit the solved button.

http://askubuntu.com/questions/30071/the-partition-is-misaligned-error-in-disk-utility-should-i-repartition