# STOCKHOLM 1.0
#=GF ID sR3
#=GF AC RF01133
#=GF DE Small nucleolar RNA sR3
#=GF AU Wilkinson A; 0000-0001-7406-0151
#=GF GA 41.0
#=GF NC 40.4
#=GF TC 42.1
#=GF SE Predicted; WAR; Wilkinson A
#=GF SS Predicted; WAR; Wilkinson A
#=GF TP Gene; snRNA; snoRNA; CD-box;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 19.87 -Z 549862.597050 CM SEQDB
#=GF DR URL; http://lowelab.ucsc.edu/snoRNAdb/;
#=GF DR SO; 0001263; ncRNA_gene;
#=GF DR GO; 0006396; RNA processing;
#=GF DR GO; 0005730; nucleolus;
#=GF RN [1]
#=GF RM 10775111
#=GF RT Homologs of small nucleolar RNAs in Archaea.
#=GF RA Omer AD, Lowe TM, Russell AG, Ebhardt H, Eddy SR, Dennis PP
#=GF RL Science. 2000;288:517-522.
#=GF WK Small_nucleolar_RNA
#=GF SQ 19

BA000001.2/535542-535480   A----U---AGGCGAUGAUGA-GC------UCCAUCCCUACCUGAGUUG--------------------UGAUGAA-UGUAGCGCGCUCUGA-----GCAACC-
AJ248287.2/209210-209272   AA-AGG---C---GAUGAUGA-GC------UCCAUCCCUAUCUGAGUUG--------------------UGAUGA-CUGUAGCGCGCUCUGA-----GCUACA-
L77117.1/260391-260453     A----UCGCC---AAUGAUGA-CGAUUGGCUU-------UGCUGAGUCUG-------------------UGAUGAACCGU-AUGAGCACUGA-----GGCGAU-
Y18930.1/78510-78450       -CGGGG---A---AAUGAUGA------GGGUUCC---AGAGCUGAAGCG--------------------UGAUGAAUGGU-UGACACGCUGACCCCG------C
BA000001.2/1099694-1099748 G----G---C---GAUGAUGA-AUAGCAAGCC-------AGCUGAAGAG--------------------UGAUGAAGUGA-ACACCCCCUGA-----G-----C
L77117.1/467007-466953     G----G---C---AAUGAUGA-AAAGAGGGUU-------AGCUGAACUG--------------------UGAUGAUACUU-ACCCGAACUGA-----G-----C
AJ248286.2/84133-84079     G----G---C---GAUGAUGA-GUAGCAAGCC-------ACCUGACCUA--------------------UGAUGAGGUGAACA-CCCCCUGA-----G-----C
AE000782.1/2141683-2141629 C----G---G---CGUGAUGA-UUGACGGGUC-------UGCUGAGCGG--------------------UGAUGACCCGU-UGGAGCUCUGA-----C-----C
AY047491.1/12-66           C----G---G---UGUGAUGA-CCAAUGGGUC-------UGCUGAAGUG--------------------UGAUGACCCGU-UGGAGCUCUGA-----C-----C
CP000254.1/1849259-1849314 G----C---A---GAUGAUGA-CAAAUGGGUC-------UUCUGAUUUGG-------------------UGAUGAUCCGU-UGGAGCACUGA-----U-----G
CP000780.1/742645-742701   G----C---A---GAUGAUGA-ACAAUGGGUC-------UGCUGAAAUUG------------------AUGAUGACCCGU-UGGAGCACUGA-----U-----G
CP000559.1/1002954-1003010 G----C---G---UAUGAUGAACUAUCGGGUC-------UACUGAUUUGA-------------------UGAUGACCCGC-UGGAGCACUGA-----U-----C
CP000562.1/1074852-1074794 G----C---A---CGUGAUGA-ACAAUGGGUC-------UCCUGACGAACG----------------GAUGAUGACCCGU-UGGAGCACUGA-----U-----G
CP000300.1/175892-175966   A----U---A---AAUGAUGA-ACAACGGGUC-------UACUGAGAUCUGCUCGACGGAGUGGGUCGGUGAAGAGCCGU-UGGAGCACUGA-----U-----G
CP000477.1/799971-800043   C----U---G---GAUGAUGA-GCAACGGGUC-------UGCUGAGCCAUCCCGACGG--GGAUGGUGUUGAUGAUCCGU-UGGAGCACUGA-----G-----A
AM114193.2/215332-215260   A----A---A---UAUGAUGA-GCAACGGGUC-------ACCUGAAGCUGCCCGACGG--GGUAGCUUGUGAGGAACCGU-UGGAGCGCUGA-----U-----U
CP000099.1/1909489-1909415 A----U---A---AAUGAUGA-ACAACGGGUA-------UACUGAAUCUUUCCCGACGGGGCAAGAUAAUGAGGAACCGU-UGGAGCACUGA-----U-----A
AE008384.1/2153609-2153535 A----U---A---AAUGAUGA-ACAACGGGUC-------UACCGAGUCUUUCCCGACGGGGCAGGACAAUGAGGAACCGU-UGGAGCACUGA-----U-----A
AE009950.1/1226581-1226635 G----G---C---GAUGAUGA-AUAGCAAGCC-------ACCUGAAGAG--------------------UGAUGAGGUGA-ACACCCCCUGA-----G-----C
#=GC SS_cons               :....:...:...::::::::.::::::::::.......::::::::::....................:::::::::::.:::::::::::.....:.....:
#=GC RF                    a....g...a...aAUGAUGA.acAaCGGGUC.......agCUGAguug....................UGAUGAaCCGU.UGGAGCaCUGA.....G.....c
//
