6b0d68657267f1e02c47d4224ea62446bbbb2ba0 max Fri May 22 06:55:52 2026 -0700 small non-AI changes to the html docs pages of the long-read SV tracks diff --git src/hg/makeDb/trackDb/human/meiHgsvc3.html src/hg/makeDb/trackDb/human/meiHgsvc3.html index 36341cbb9db..35d9544510a 100644 --- src/hg/makeDb/trackDb/human/meiHgsvc3.html +++ src/hg/makeDb/trackDb/human/meiHgsvc3.html @@ -31,31 +31,31 @@ L1ME-AID and PALMER validation flags, overlap with reference segmental duplications and tandem repeats, and the full DNA sequence of the inserted mobile element (the ALT allele minus the anchor base). </p> <h2>Display Conventions and Configuration</h2> <p> An insertion has zero length on the reference: it attaches between two adjacent reference bases without replacing any of them. Following the VCF convention used by the underlying PAV calls and by the other long-read SV tracks, each MEI is drawn as a <b>1-bp block sitting on the anchor base</b> — the reference base immediately to the left of the insertion attachment point. The inserted mobile element itself is not present in the reference and is therefore not drawn; its length is reported on the detail page (svLen) and in the item label -(<tt>INS-svLen:carrierCount</tt>). bigBed does support truly zero-width +(<tt>class-svLen:carrierCount</tt>). bigBed does support truly zero-width features between nucleotides, but for consistency with the <a href="hgTrackUi?g=lrSv">long-read SV tracks</a>, this track uses the 1-bp anchor representation instead. </p> <p> Items are colored by element class: </p> <ul> <li><span style="display:inline-block;background-color:#0072B2;width:18px;height:12px;vertical-align:middle;"></span> <b>Alu</b> — SINE (Short INterspersed Element)</li> <li><span style="display:inline-block;background-color:#D55E00;width:18px;height:12px;vertical-align:middle;"></span> <b>L1</b> — LINE-1 (Long INterspersed Element-1)</li> <li><span style="display:inline-block;background-color:#009E73;width:18px;height:12px;vertical-align:middle;"></span> <b>SVA</b> (SINE-VNTR-Alu) — composite retrotransposon</li> <li><span style="display:inline-block;background-color:#CC79A7;width:18px;height:12px;vertical-align:middle;"></span> <b>HERVK</b> (Human Endogenous Retrovirus K) — endogenous retrovirus</li> <li><span style="display:inline-block;background-color:#000000;width:18px;height:12px;vertical-align:middle;"></span> <b>snRNA</b> — small nuclear RNA</li> </ul> <p>