811dd66056e8ee6ceca4b67ea0551a0540ded944 hiram Thu Nov 10 11:15:09 2022 -0800 eliminate the bit about name searching no redmine diff --git src/hg/utils/automation/asmHubXenoRefGene.pl src/hg/utils/automation/asmHubXenoRefGene.pl index 8d8a6f3..90a17e7 100755 --- src/hg/utils/automation/asmHubXenoRefGene.pl +++ src/hg/utils/automation/asmHubXenoRefGene.pl @@ -59,36 +59,30 @@
The RefSeq mRNAs gene track for the $assemblyDate $em${organism}$noEm/$asmId genome assembly displays translated blat alignments of vertebrate and invertebrate mRNA in GenBank.
Total genome size: $totalBases
Gene count: $itemCount
Bases in genes: $basesCovered
Percent genome coverage: % $percentCoverage
-Please note, the name searching system is not completely case insensitive. -When in doubt, enter search names in all lower case to find gene names. -
-The mRNAs were aligned against the $em${organism}$noEm/$asmId genome using translated blat. When a single mRNA aligned in multiple places, the alignment having the highest base identity was found. Only those alignments having a base identity level within 1% of the best and at least 25% base identity with the genomic sequence were kept.
Specifically, the translated blat command is:
blat -noHead -q=rnax -t=dnax -mask=lower target.fa query.fa target.query.psl