Can someone help me with this question ??
I think the sequencing reaction is like randomly incorporating a nucleotide into the DNA that terminates the chain and fluoresces.
So that means stuff at the bottom that runs the fastest is closes to the 5` end (if you are making GTCGAC and you incorporate as your first nucleotide a G that terminates the synthesis, then you get a glowing single nucleotide, G)
So we read the 5
-3 sequence from the bottom up.