Genome alignments from "Split-alignment of genomes finds orthologies more accurately"

<p>Here are the genome alignments resulting from &quot;Split-alignment of genomes finds orthologies more accurately&quot;, Genome Biology 2015, 16:106.</p> <ul> <li>In the terminology of that paper, these are 2-split, post-masked alignments.</li> <li>They are in MAF format (http://genome.ucsc.edu/FAQ/FAQformat.html), with &quot;p&quot; lines (http://last.cbrc.jp/doc/last-split.html).</li> <li>Alignments with high ambiguity have not been removed, so if you want unambiguously 1-to-1 alignments, remove those annotated with mismap &gt; 0.00001 or so.</li> <li>The chimp and orangutan alignments were made using the 500/30 gap costs suggested at the end of the paper.</li> </ul> <p>&nbsp;</p>