Can i create a separate folder in time machine?

Question

Can i create a separate folder in time machine, and store applications on it? will time machine mess with the separate folder?

Answer 1

If you mean a separate folder on your TM backup drive, then the answer is, "Yes." TM will not disturb it. However, if your plan is to store items on the TM backup drive then a preferable method is to partition the backup drive:
To resize the drive do the following:
1. Open Disk Utility and select the drive entry (mfgr.'s ID and size) from the left side list.
2. Click on the Partition tab in the DU main window. You should see the graphical sizing window showing the existing partitions. A portion may appear as a blue rectangle representing the used space on a partition.
3. In the lower right corner of the sizing rectangle for each partition is a resizing gadget. Select it with the mouse and move the bottom of the rectangle upwards until you have reduced the existing partition enough to create the desired new volume's size. The space below the resized partition will appear gray. Click on the Apply button and wait until the process has completed.  (Note: You can only make a partition smaller in order to create new free space.)
4. Click on the [+] button below the sizing window to add a new partition in the gray space you freed up. Give the new volume a name, if you wish, then click on the Apply button. Wait until the process has completed.
You should now have a new volume on the drive.
It would be wise to have a backup of your current system as resizing is not necessarily free of risk for data loss.  Your drive must have sufficient contiguous free space for this process to work.
Be sure you provide sufficient space in the TM partition. It should be at least twice the size of the drive it is backing up. If it isn't large enough for both TM and your storage needs, then you should get a bigger drive or another drive.