No it doesnt matter. If you see Algae anywhere, you still need to treat it as a SLAM. You will know you are done when there are no signs of Algae anymore, the water is clear, and you can pass the OCLT.
As soon as you can, you need to get the FC up to 16, and do all you can to keep it there. Keep brushing, watching the filter, and stick with the SLAM process. Doing all this will get you through it, and we can help with any questions.