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The Link Training (LT) algorithm will get you a good BER, but according to the IEEE standard the LT has to be complete in less than 12 secunds, which is enough to give a good BER. However, if you are looking for the optimal BER, this may take some manual tweaking. Here is an easy way to do that with Z800 Freya and XenaManager.
Due to the way the PAM4 algorithm is designed, it is very common to see a higher BER on some of the uneven lanes, as the example below shows.