This track shows conserved non-coding regions predicted by EvoFold [1].
This track is prepared to give interoperability with the functional RNA database [2] v3.0.
Short sequences (shorter than 30nt) are aligned to genome by SeqMap [3] with 0 mismatch, no-gap and no-repeat.
Other sequences are aligned to genome by BLAT [4] with identity>=99, coverage>=90 and no-repeat.
And limit results to positions of EvoFold track in UCSC Genome Browser.
[1] Pedersen JS, Bejerano G, Siepel A, Rosenbloom K, Lindblad-Toh K, Lander ES, Kent J, Miller W, Haussler D.
Identification and classification of conserved RNA secondary structures in the human genome.
PLoS Comput Biol. 2006 Apr;2(4):e33.
[2] Kin T, Yamada K, Terai G, Okida H, Yoshinari Y, Ono Y, Kojima A, Kimura Y, Komori T, Asai K.
fRNAdb: a platform for mining/annotating functional RNA candidates from non-coding RNA sequences.
Nucleic Acids Res. 2007 Jan;35(Database issue):D145-8.
[3] Jiang H, Wong WH
SeqMap: mapping massive amount of oligonucleotides to the genome.
Bioinformatics. 2008 Oct 15;24(20):2395-6. Epub 2008 Aug 12.
[4] Kent WJ.
BLAT--the BLAST-like alignment tool.
Genome Res. 2002 Apr;12(4):656-64.