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If the secondary is not positioned correctly under the focuser, but still correctly reflects the center of the focuser axis to the center of the primary mirror, you will not notice image quality problems, but only slight (probably undetectable) reduction in brightness, since you are just vignetting the light cone.
If the secondary mirror is not accurately reflecting the center of the focuser axis to the center of the primary mirror, you could notice true image collimation issues (blurry stars than don't want to focus, hazy images of the planets, etc). So, yes, secondary misalignment in this sense will matter.
An f5 scope like you have will be touchier w/r to collimation than an f6 or slower scope. Seeing will often limit the issue, as stated, but if you are keen to look at double stars, the moon, the planets, then you should invest in more precise collimation tools: Either a laser collimator with a barlow attachment (which will let you align teh secondary and primary), or chesire/sight-tube set.
The primary (non-barlowed) beam of the laser - assuming the laser itself is well collimated - is a fast and accurate way to align things, but it isn't a 'must have' tool. you can achieve equally accurate outcomes with the chesire/sight-tube combo. If you want super-accurate collimation, invest also in an autocollimator.
There are many great internet resources, but to be honest 15 min with a collimation veteran - who can see what tools you have to use and adjust the collimation algorithm to your tool set - is probably invaluable in getting you squared away.
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