1b4f89e8c61f36eb897687a47f8fa0971823e3d1 braney Thu Feb 12 13:12:17 2026 -0800 create placeholder HTML for Alignment Differences track refs #36942 diff --git src/hg/htdocs/goldenPath/help/quickLiftChain.html src/hg/htdocs/goldenPath/help/quickLiftChain.html index b4e87f704ff..45c401b59df 100644 --- src/hg/htdocs/goldenPath/help/quickLiftChain.html +++ src/hg/htdocs/goldenPath/help/quickLiftChain.html @@ -1,30 +1,3 @@ <h2>Description</h2> <p> -The Base Position feature in the Genome Browser annotations track image shows -the genomic coordinates of the displayed region and -- when zoomed in to the -base level -- the base composition of the sequence underlying the annotation -tracks display. To quickly zoom in to the base level, click the <em>base</em> -zoom-in button. The <em>base</em> button may also be used to automatically -zoom the window to maximize the base display when the image is resized. Click -the arrow to the left of the base display to show the base complement. -To toggle between dense and full display mode, click anywhere on the base -composition line. </p> -<p> -In dense display mode, clicking anywhere on the genome coordinate line will -zoom-in the display, centered on the coordinate of the click. The degree of -the zoom may be configured through the Zoom configuration buttons (the default -is 3X). In full display mode, the track shows three frames of translation -when viewed at the base level. Methionines (including potential start codons) -are displayed in green and labeled "M". Stop codons are colored -red and labeled with "*". Codons within or on the boundaries of -gaps, or at the ends of the chromosome, are colored black and labeled -with an "X" to indicate an -error (e.g. a truncated codon). All other codons are shown in alternating -shades of gray to indicate codon boundaries and are labeled by the amino -acids they represent. To view the translation on the reverse strand, click -the arrow to complement the base display. </p> -<p> -To add a title to the top of the display browser display image, enter the text in -the Title textbox. To display the name and date of the assembly, check -the Assembly checkbox. To display the position and chromosome, check -the Position checkbox.<p> +This track shows mismatches between the assembly from which the track was quickLifted and the current genome.