Custom Scoring option

I noticed that clicking custom scoring provides different results when doing trade analysis as opposed to not clicking custom scoring. I may be answering my own question, but does the custom scoring feature sink up to my league.
Example w/= RB ranks 9th before and 8th after, w/out = 9th before and 3rd after,
the WR spot is a little less varied, but still significant.

Would like to know this also.