This track shows blat translated protein alignments of the Fugu ($o_date) genome assembly to the $organism genome. The v3.0 Fugu whole genome shotgun assembly was provided by the US DOE Joint Genome Institute (JGI).
The strand information (+/-) for this track is in two parts. The first + or - indicates the orientation of the query sequence whose translated protein produced the match. The second + or - indicates the orientation of the matching translated genomic sequence. Because the two orientations of a DNA sequence give different predicted protein sequences, there are four combinations. ++ is not the same as --; nor is +- the same as -+.
The alignments were made with blat in translated protein mode requiring two nearby 4-mer matches to trigger a detailed alignment. The $organism genome was masked with RepeatMasker and Tandem Repeat Finder before running blat.
The 3.0 draft from JGI was used in the UCSC Fugu blat alignments. These data were provided freely by the JGI for use in this publication only.
Kent, W.J. BLAT - the BLAST-like alignment tool. Genome Res. 12(4), 656-664 (2002).