<div dir="ltr">Thanks Konrad, this should be fixed on 85 now. I can patch previous releases too if you're using an older one?<div><br></div><div>AGG->AG and AGG->A both resolve to a deletion, and internally things were being keyed on the resolved ALT, which in both cases was "-" even though they were deleting different things...<br><div><br></div><div>Will</div></div></div><div class="gmail_extra"><br><div class="gmail_quote">On 3 August 2016 at 06:15, Konrad Karczewski <span dir="ltr"><<a href="mailto:konradk@broadinstitute.org" target="_blank">konradk@broadinstitute.org</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word"><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">Hi Will, Ensembl folk,</div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto"><br></div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">When annotating ExAC (yet again...), I found another issue with multi-allelics. The following variant:</div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto"><br></div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">20<span style="white-space:pre-wrap">  </span>31022441<span style="white-space:pre-wrap">        </span>.<span style="white-space:pre-wrap">       </span>AGG<span style="white-space:pre-wrap">     </span>AGGG,AG,TGG,A</div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto"><br></div><div style="font-family:Helvetica,Arial;font-size:13px;color:rgba(0,0,0,1.0);margin:0px;line-height:auto">only gets 3 alleles annotated (15 total annotations, with 5 overlapping transcripts), and the final allele (AGG->A) appears to not get annotated.</div><div><br></div>Seems to persist all the way up to v85. Any ideas why this might be the case?<div><br></div><div>Thanks!<span class="HOEnZb"><font color="#888888"><br><div><div style="font-family:helvetica,arial;font-size:13px">-Konrad</div></div></font></span></div></div>
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