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I have 500GB of Harddisk space.

Following is the structure

Device Boot      Start         End      Blocks   Id  System

/dev/sda1   *        2048      206847      102400    7  HPFS/NTFS/exFAT
/dev/sda2          206848    81922047    40857600    7  HPFS/NTFS/exFAT
/dev/sda3        81924094   292857855   105466881    5  Extended
/dev/sda5        81924096   277233663    97654784   83  Linux
/dev/sda6       277235712   292857855     7811072   82  Linux swap / Solaris

How do I extend my logical partition without affecting Ubuntu?

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Use GParted to edit your partitions.

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you can also install gparted via command line like so: 'sudo apt-get install gparted' – CSᵠ Jan 2 '13 at 20:54
@godka That is a possibility, but I'd be more cautious when using gparted on a running system as opposed to using a LiveCD of gparted. – Kruug Jan 2 '13 at 20:56
indeed @Kruug, much safer with some partitioning distro – CSᵠ Jan 2 '13 at 21:04
@Kruug gparted can be used but will it affect exisitng Ubuntu? – Akhil K Nambiar Jan 3 '13 at 5:39
@Akhil as long as you don't extend into your Ubuntu, you'll be fine. If you don't need the entire space of the 2 NTFS partitions, you can shrink, slide, then expand. – Kruug Jan 3 '13 at 5:57

Check out Hiren's Boot CD, it has a lot of great tools.
You can boot off it, choose one of the partitioning softwares and partition your system anyway you like it.

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