I have a list of variants and want to know if the variants are predicted to be deleterious or benign. When I did that using Polyphen2 and uploaded my variants as batch query, I got multiple possibilities for the prediction. For example, for the variant chr11:47306106 G/A, below is the Polyphen output, which one to pick? And what does this mean
o_snp_id o_acc o_pos o_aa1 o_aa2 snp_id nt1 nt2 prediction
chr11:47306106.GA.uc001ner.1 Q8WXG6 716 G E chr11:47306106.GA.uc001ner.1 G A possibly damaging
chr11:47306106.GA.uc001nes.1 Q8WXG6-4 716 G E chr11:47306106.GA.uc001nes.1 G A benign
chr11:47306106.GA.uc001net.1 Q8WXG6-2 716 G E chr11:47306106.GA.uc001net.1 G A benign
chr11:47306106.GA.uc001neu.1 Q8WXG6-5 716 G E chr11:47306106.GA.uc001neu.1 G A possibly damaging
chr11:47306106.GA.uc001nev.1 Q8WXG6-6 716 G E chr11:47306106.GA.uc001nev.1 G A benign
chr11:47306106.GA.uc001new.2 Q8WXG6-3 716 G E chr11:47306106.GA.uc001new.2 G A possibly damaging
chr11:47306106.GA.uc001nex.2 Q8WXG6-7 716 G E chr11:47306106.GA.uc001nex.2 G A possibly damaging
chr11:47306106.GA.uc001nez.2 Q8WXG6-5 716 G E chr11:47306106.GA.uc001nez.2 G A possibly damaging
chr11:47306106.GA.uc009yln.1 B5MEE5 716 G E chr11:47306106.GA.uc009yln.1 G A benign
acc pos aa1 aa2 nt1 nt2 prediction
Q8WXG6 716 G E G A possibly damaging
Q8WXG6-4 716 G E G A benign
Q8WXG6-2 716 G E G A benign
Q8WXG6-5 716 G E G A possibly damaging
Q8WXG6-6 716 G E G A benign
Q8WXG6-3 716 G E G A possibly damaging
Q8WXG6-7 716 G E G A possibly damaging
Q8WXG6-5 716 G E G A possibly damaging
B5MEE5 716 G E G A benign
o_snp_id o_acc o_pos o_aa1 o_aa2 snp_id nt1 nt2 prediction
chr11:47306106.GA.uc001ner.1 Q8WXG6 716 G E chr11:47306106.GA.uc001ner.1 G A possibly damaging
chr11:47306106.GA.uc001nes.1 Q8WXG6-4 716 G E chr11:47306106.GA.uc001nes.1 G A benign
chr11:47306106.GA.uc001net.1 Q8WXG6-2 716 G E chr11:47306106.GA.uc001net.1 G A benign
chr11:47306106.GA.uc001neu.1 Q8WXG6-5 716 G E chr11:47306106.GA.uc001neu.1 G A possibly damaging
chr11:47306106.GA.uc001nev.1 Q8WXG6-6 716 G E chr11:47306106.GA.uc001nev.1 G A benign
chr11:47306106.GA.uc001new.2 Q8WXG6-3 716 G E chr11:47306106.GA.uc001new.2 G A possibly damaging
chr11:47306106.GA.uc001nex.2 Q8WXG6-7 716 G E chr11:47306106.GA.uc001nex.2 G A possibly damaging
chr11:47306106.GA.uc001nez.2 Q8WXG6-5 716 G E chr11:47306106.GA.uc001nez.2 G A possibly damaging
chr11:47306106.GA.uc009yln.1 B5MEE5 716 G E chr11:47306106.GA.uc009yln.1 G A benign
acc pos aa1 aa2 nt1 nt2 prediction
Q8WXG6 716 G E G A possibly damaging
Q8WXG6-4 716 G E G A benign
Q8WXG6-2 716 G E G A benign
Q8WXG6-5 716 G E G A possibly damaging
Q8WXG6-6 716 G E G A benign
Q8WXG6-3 716 G E G A possibly damaging
Q8WXG6-7 716 G E G A possibly damaging
Q8WXG6-5 716 G E G A possibly damaging
B5MEE5 716 G E G A benign
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