Performing a BLAT search

  • BLAT stands for "Blast Like Alignment Tool". It is very fast and is designed to find nearly identical matches.

  • A description of blat is located at the bottom of this PAGE.

  1. The query is displayed with identities in blue and splice junctions in light blue.

  2. The genomic sequence colored the same way.

  3. The sequences in pairwise alignment.

  • Return to the BLAT results page and select the "browser" hyperlink. Note the new "Blat sequence" track being displayed in the "Mapping and Sequencing" group, this track has the same visualization controls as other similar tracks.

  • Click the "hide all" button, use the pull-down menus to set ENCODEv24 and Blat sequence to "full" and refresh the view. Zoom out so the entire footprint of the PCDH10 is visible. The coordinates are: chr4:133,147,918-133,213,548

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