This is a compacted version of the phastCons track provided by UCSC. The original
version provides conservation probabilities for single bases. This version provides
integer scores between 1 and 5 for short regions where PhastCons scores consistently
are greater or equal to 0.5. The integer scores are the rounded sums of the phastCons
probabilities within such a regions. Larger regions with consistently high phastCons
probabilites are cut into shorter chunks with sum of probabilites not exceeding 5.
The single genomic position given in the SGA file corresponds to the
probability-weighted average position (center of gravity) of the corresponding
conserved region. For more details, see directly the Perl script available from our FTP
site (URL given below).
At the time this series was generated, UCSC didn't provide conservation tracks
for assembly galGal5. We therefore used the phastCons track for galGal3 as starting data.
The WIG file was compacted and converted into SGA format using custom scripts available at
Original coordinates for galGal3 were converted to galGal5 using the liftOver program
from UCSC available from
https://genome-store.ucsc.edu/.
BED-to-SGA conversion was carried out using bed2sga
(
ChIP-Seq v. 1.5.3).