Family,Domain,Seed domains,Full region domains,Rfam ID,Description,RNA type
RF00001,Mixed,"Bacteria (48.6%), Eukaryota (45.51%), Archaea (5.9%)","Eukaryota (87.59%), Bacteria (12.0%), Archaea (0.4%)",5S_rRNA,5S ribosomal RNA,Gene; rRNA;
RF00005,Mixed,"Eukaryota (78.2%), Bacteria (17.3%), Archaea (3.46%), Viruses (1.05%)","Eukaryota (73.83%), Bacteria (25.02%), Archaea (0.95%), Viruses (0.2%)",tRNA,tRNA,Gene; tRNA;
RF00058,Archaea,Archaea (100.0%),Archaea (100.0%),HgcF,HgcF RNA (Pab35),Gene; snRNA; snoRNA; HACA-box;
RF00060,Archaea,Archaea (100.0%),Archaea (100.0%),HgcE,HgcE RNA (Pab105),Gene; snRNA; snoRNA; HACA-box;
RF00062,Archaea,Archaea (100.0%),Archaea (100.0%),HgcC,HgcC family RNA,Gene;
RF00063,Archaea,Archaea (100.0%),Archaea (100.0%),SscA,SscA RNA,Gene;
RF00064,Archaea,Archaea (100.0%),Archaea (100.0%),HgcG,HgcG RNA (Pab40),Gene; snRNA; snoRNA; HACA-box;
RF00065,Archaea,Archaea (100.0%),Archaea (100.0%),snoR9,Small nucleolar RNA snoR9,Gene; snRNA; snoRNA; CD-box;
RF00095,Archaea,Archaea (100.0%),Archaea (100.0%),snoPyro_CD,Pyrococcus C/D box small nucleolar RNA,Gene; snRNA; snoRNA; CD-box;
RF00373,Archaea/Mixed,"Archaea (68.57%), unclassified sequences (31.43%)","Archaea (89.36%), unclassified sequences (6.16%), Bacteria (4.48%)",RNaseP_arch,Archaeal RNase P,Gene; ribozyme;
RF01119,Archaea,Archaea (100.0%),Archaea (100.0%),sR32,Small nucleolar RNA sR32,Gene; snRNA; snoRNA; CD-box;
RF01120,Archaea,Archaea (100.0%),"Archaea (91.67%), Eukaryota (8.33%)",sR33,Small nucleolar RNA sR33,Gene; snRNA; snoRNA; CD-box;
RF01121,Archaea,Archaea (100.0%),Archaea (100.0%),sR38,Small nucleolar RNA sR38,Gene; snRNA; snoRNA; CD-box;
RF01122,Archaea,Archaea (100.0%),Archaea (100.0%),sR39,Small nucleolar RNA sR39,Gene; snRNA; snoRNA; CD-box;
RF01123,Archaea,Archaea (100.0%),Archaea (100.0%),sR35,Small nucleolar RNA sR35,Gene; snRNA; snoRNA; CD-box;
RF01124,Archaea,Archaea (100.0%),Archaea (100.0%),sR36,Small nucleolar RNA sR36,Gene; snRNA; snoRNA; CD-box;
RF01125,Archaea,"Archaea (66.67%), unclassified sequences (33.33%)","Archaea (75.0%), unclassified sequences (25.0%)",sR4,Small nucleolar RNA sR4,Gene; snRNA; snoRNA; CD-box;
RF01126,Archaea,Archaea (100.0%),Archaea (100.0%),sR41,Small nucleolar RNA sR41,Gene; snRNA; snoRNA; CD-box;
RF01127,Archaea,Archaea (100.0%),Archaea (100.0%),sR42,Small nucleolar RNA sR42,Gene; snRNA; snoRNA; CD-box;
RF01128,Archaea,Archaea (100.0%),Archaea (100.0%),sR43,Small nucleolar RNA sR42,Gene; snRNA; snoRNA; CD-box;
RF01129,Archaea,Archaea (100.0%),Archaea (100.0%),sR44,Small nucleolar RNA sR44,Gene; snRNA; snoRNA; CD-box;
RF01130,Archaea,Archaea (100.0%),Archaea (100.0%),sR46,Small nucleolar RNA sR46,Gene; snRNA; snoRNA; CD-box;
RF01131,Archaea,Archaea (100.0%),Archaea (100.0%),sR47,Small nucleolar RNA sR47,Gene; snRNA; snoRNA; CD-box;
RF01132,Archaea,Archaea (100.0%),Archaea (100.0%),sR48,Small nucleolar RNA sR48,Gene; snRNA; snoRNA; CD-box;
RF01133,Archaea,Archaea (100.0%),"Archaea (98.63%), Bacteria (1.37%)",sR3,Small nucleolar RNA sR3,Gene; snRNA; snoRNA; CD-box;
RF01134,Archaea/Mixed,Archaea (100.0%),"Eukaryota (60.0%), Archaea (40.0%)",sR30,Small nucleolar RNA sR30,Gene; snRNA; snoRNA; CD-box;
RF01135,Archaea,Archaea (100.0%),Archaea (100.0%),sR24,Small nucleolar RNA sR24,Gene; snRNA; snoRNA; CD-box;
RF01136,Archaea,Archaea (100.0%),Archaea (100.0%),sR28,Small nucleolar RNA sR28,Gene; snRNA; snoRNA; CD-box;
RF01137,Archaea,Archaea (100.0%),Archaea (100.0%),sR21,Small nucleolar RNA sR21,Gene; snRNA; snoRNA; CD-box;
RF01138,Archaea,Archaea (100.0%),Archaea (100.0%),sR23,Small nucleolar RNA sR23,Gene; snRNA; snoRNA; CD-box;
RF01139,Archaea,Archaea (100.0%),Archaea (100.0%),sR2,Small nucleolar RNA sR2,Gene; snRNA; snoRNA; CD-box;
RF01140,Archaea,Archaea (100.0%),Archaea (100.0%),sR20,Small nucleolar RNA sR20,Gene; snRNA; snoRNA; CD-box;
RF01141,Archaea,Archaea (100.0%),Archaea (100.0%),sR18,Small nucleolar RNA sR18,Gene; snRNA; snoRNA; CD-box;
RF01142,Archaea,Archaea (100.0%),Archaea (100.0%),sR19,Small nucleolar RNA sR19,Gene; snRNA; snoRNA; CD-box;
RF01143,Archaea,Archaea (100.0%),Archaea (100.0%),sR16,Small nucleolar RNA sR16,Gene; snRNA; snoRNA; CD-box;
RF01144,Archaea/Mixed,Archaea (100.0%),"Archaea (83.33%), Eukaryota (16.67%)",sR17,Small nucleolar RNA sR17,Gene; snRNA; snoRNA; CD-box;
RF01145,Archaea,Archaea (100.0%),Archaea (100.0%),sR14,Small nucleolar RNA sR14,Gene; snRNA; snoRNA; CD-box;
RF01146,Archaea,Archaea (100.0%),Archaea (100.0%),sR15,Small nucleolar RNA sR15,Gene; snRNA; snoRNA; CD-box;
RF01147,Archaea,Archaea (100.0%),Archaea (100.0%),sR12,Small nucleolar RNA sR12,Gene; snRNA; snoRNA; CD-box;
RF01149,Archaea,Archaea (100.0%),Archaea (100.0%),sR10,Small nucleolar RNA sR10,Gene; snRNA; snoRNA; CD-box;
RF01150,Archaea,Archaea (100.0%),Archaea (100.0%),sR11,Small nucleolar RNA sR11,Gene; snRNA; snoRNA; CD-box;
RF01152,Archaea,Archaea (100.0%),Archaea (100.0%),sR1,Small nucleolar RNA sR1,Gene; snRNA; snoRNA; CD-box;
RF01273,Archaea,Archaea (100.0%),Archaea (100.0%),sR34,Small nucleolar RNA sR34,Gene; snRNA; snoRNA; CD-box;
RF01274,Archaea,Archaea (100.0%),Archaea (100.0%),sR45,Small nucleolar RNA sR45,Gene; snRNA; snoRNA; CD-box;
RF01275,Archaea,Archaea (100.0%),Archaea (100.0%),sR22,Small nucleolar RNA sR22,Gene; snRNA; snoRNA; CD-box;
RF01276,Archaea,Archaea (100.0%),Archaea (100.0%),sR53,Small nucleolar RNA sR53,Gene; snRNA; snoRNA; CD-box;
RF01297,Archaea,Archaea (100.0%),Archaea (100.0%),sR40,Small nucleolar RNA sR40,Gene; snRNA; snoRNA; CD-box;
RF01303,Archaea,Archaea (100.0%),Archaea (100.0%),sR49,Small nucleolar RNA sR49,Gene; snRNA; snoRNA; CD-box;
RF01304,Archaea,Archaea (100.0%),Archaea (100.0%),sR5,Small nucleolar RNA sR5,Gene; snRNA; snoRNA; CD-box;
RF01305,Archaea,Archaea (100.0%),"Archaea (90.91%), Eukaryota (9.09%)",sR51,Small nucleolar RNA sR51,Gene; snRNA; snoRNA; CD-box;
RF01306,Archaea,Archaea (100.0%),Archaea (100.0%),sR52,Small nucleolar RNA sR52,Gene; snRNA; snoRNA; CD-box;
RF01307,Archaea,Archaea (100.0%),Archaea (100.0%),sR55,Small nucleolar RNA sR55,Gene; snRNA; snoRNA; CD-box;
RF01308,Archaea,Archaea (100.0%),Archaea (100.0%),sR58,Small nucleolar RNA sR58,Gene; snRNA; snoRNA; CD-box;
RF01309,Archaea,Archaea (100.0%),Archaea (100.0%),sR60,Small nucleolar RNA sR60,Gene; snRNA; snoRNA; CD-box;
RF01310,Archaea,Archaea (100.0%),Archaea (100.0%),sR7,Small nucleolar RNA sR7,Gene; snRNA; snoRNA; CD-box;
RF01312,Archaea,Archaea (100.0%),Archaea (100.0%),sR9,Small nucleolar RNA sR9,Gene; snRNA; snoRNA; CD-box;
RF01319,Archaea,Archaea (100.0%),"Archaea (99.84%), Eukaryota (0.16%)",CRISPR-DR6,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01324,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR11,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01326,Archaea,Archaea (100.0%),"Archaea (99.25%), Eukaryota (0.75%)",CRISPR-DR13,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01328,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR17,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01337,Archaea,Archaea (100.0%),"Archaea (99.92%), Eukaryota (0.08%)",CRISPR-DR24,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01338,Archaea,Archaea (100.0%),"Archaea (99.01%), Eukaryota (0.99%)",CRISPR-DR25,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01339,Archaea,Archaea (100.0%),"Archaea (96.99%), Eukaryota (2.26%), Bacteria (0.75%)",CRISPR-DR27,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01350,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR41,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01351,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR42,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01353,Mixed/Archaea,"Archaea (66.67%), Bacteria (33.33%)","Archaea (94.44%), Bacteria (5.56%)",CRISPR-DR44,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01354,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR45,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01355,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR26,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01358,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR39,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01360,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR47,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01369,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR56,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01373,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR60,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01375,Archaea/Mixed,Archaea (100.0%),,CRISPR-DR62,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01377,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR64,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01378,Archaea,Archaea (100.0%),Archaea (100.0%),CRISPR-DR65,CRISPR RNA direct repeat element,Gene; CRISPR;
RF01722,Archaea,Archaea (100.0%),Archaea (100.0%),Pyrobac-1,Pyrobac-1 RNA,Gene; sRNA;
RF01737,Archaea,Archaea (100.0%),Archaea (100.0%),flpD,flpD RNA,Cis-reg;
RF01829,Archaea,Archaea (100.0%),Archaea (100.0%),sR6,sR6 snoRNA,Gene; snRNA; snoRNA; CD-box;
RF01852,Mixed,"Bacteria (68.81%), Eukaryota (29.36%), Archaea (1.83%)","Bacteria (73.5%), Eukaryota (25.86%), Archaea (0.43%), Viruses (0.22%)",tRNA-Sec,Selenocysteine transfer RNA,Gene; tRNA;
RF01857,Archaea,Archaea (100.0%),"Archaea (98.73%), Bacteria (0.95%), Eukaryota (0.32%)",Archaea_SRP,Archaeal signal recognition particle RNA,Gene;
RF01959,Archaea/Mixed,Archaea (100.0%),"Archaea (84.74%), Eukaryota (10.88%), Bacteria (4.38%)",SSU_rRNA_archaea,Archaeal small subunit ribosomal RNA,Gene; rRNA;
RF02163,Archaea,Archaea (100.0%),Archaea (100.0%),sR-tMet,Small nucleolar RNA sR-tMet,Gene; snRNA; snoRNA; CD-box;
RF02357,Archaea,Archaea (100.0%),Archaea (100.0%),RNaseP-T,RNaseP truncated form,Gene; ribozyme;
RF02511,Archaea,Archaea (100.0%),Archaea (100.0%),PYLIS_4,Pyrrolysine insertion sequence TetR,Cis-reg;
RF02512,Archaea,"Archaea (94.12%), unclassified sequences (5.88%)","Archaea (97.06%), unclassified sequences (2.94%)",PYLIS_5,Pyrrolysine insertion sequence transposase 1,Cis-reg;
RF02513,Archaea,Archaea (100.0%),Archaea (100.0%),PYLIS_6,Pyrrolysine insertion sequence transposase 2,Cis-reg;
RF02540,Archaea/Mixed,Archaea (100.0%),"Eukaryota (47.88%), Archaea (36.58%), Bacteria (15.4%), Other (0.14%)",LSU_rRNA_archaea,Archaeal large subunit ribosomal RNA,Gene; rRNA;
RF02656,Archaea,Archaea (100.0%),Archaea (100.0%),sot0042,Sense overlapping transcript RNA 0042 (sot),Gene; sRNA;
RF02657,Archaea,Archaea (100.0%),Archaea (100.0%),sot2652,Sense overlapping transcript RNA 2652 (sot),Gene; sRNA;
RF02792,Archaea,Archaea (100.0%),Archaea (100.0%),sRNA162,Archaeal Small RNA 162,Gene; antisense;
RF02793,Archaea,Archaea (100.0%),Archaea (100.0%),asR3,Pyrobaculum asRNA3,Gene; antisense; 
RF02794,Archaea,Archaea (100.0%),Archaea (100.0%),Pab19,Pab19 RNA,Gene; snRNA; snoRNA; HACA-box;
RF02795,Archaea,Archaea (100.0%),Archaea (100.0%),Pab91,Pab91 RNA,Gene; snRNA; snoRNA; HACA-box;
RF02796,Mixed/Archaea,"Archaea (80.0%), Other (20.0%)","Archaea (92.86%), Other (7.14%)",Pab160,Pab160 RNA,Gene; snRNA; snoRNA; HACA-box;
RF02801,Archaea,Archaea (100.0%),Archaea (100.0%),PyrR201,Pyrobaculum sRNA 201,Gene; snRNA; snoRNA; HACA-box;
RF02802,Archaea,Archaea (100.0%),Archaea (100.0%),PyrR204,Pyrobaculum sRNA 204,Gene; snRNA; snoRNA; HACA-box;
RF02803,Archaea/Mixed,Archaea (100.0%),"Eukaryota (77.5%), Archaea (22.5%)",PyrR205,Pyrobaculum sRNA 205,Gene; snRNA; snoRNA; HACA-box;
RF02804,Archaea,Archaea (100.0%),Archaea (100.0%),PyrR206,Pyrobaculum sRNA 206,Gene; snRNA; snoRNA; HACA-box;
RF02805,Archaea,Archaea (100.0%),Archaea (100.0%),PyrR207,Pyrobaculum sRNA 207,Gene; snRNA; snoRNA; HACA-box;
RF02806,Archaea,Archaea (100.0%),Archaea (100.0%),PyrR208,Pyrobaculum sRNA 208,Gene; snRNA; snoRNA; HACA-box;
RF02807,Archaea,Archaea (100.0%),Archaea (100.0%),PyrR209,Pyrobaculum sRNA 209,Gene; snRNA; snoRNA; HACA-box;
RF02808,Archaea,Archaea (100.0%),Archaea (100.0%),PyrR210,Pyrobaculum sRNA 210,Gene; snRNA; snoRNA; HACA-box;
RF02814,Archaea,Archaea (100.0%),Archaea (100.0%),Sso133,Sulfolobus sRNA133,Gene; sRNA;
RF02905,Archaea,Archaea (100.0%),Archaea (100.0%),sRNA41,Archaeal Small RNA 41,Gene; sRNA;
RF02906,Archaea,Archaea (100.0%),Archaea (100.0%),sRNA154,Archaeal Small RNA 154,Gene; sRNA;
RF02984,unclassified sequences/Archaea,"unclassified sequences (92.05%), Archaea (7.95%)","unclassified sequences (80.2%), Archaea (19.8%)",DUF3800-X,DUF3800-X RNA,Gene; sRNA;
RF03001,Archaea,"Archaea (52.63%), unclassified sequences (47.37%)","Archaea (65.88%), unclassified sequences (34.12%)",leuA-Halobacteria,leuA-Halobacteria RNA,Cis-reg;
RF03135,Archaea,"unclassified sequences (68.87%), Archaea (31.13%)","unclassified sequences (54.76%), Archaea (45.24%)",L4-Archaeoglobi,L4-Archaeoglobi ribosomal protein leades,Cis-reg; leader;
RF03137,Archaea,"unclassified sequences (86.0%), Archaea (14.0%)","unclassified sequences (75.44%), Archaea (24.56%)",S15-Methanomicrobia,S15-Methanomicrobia ribosomal protein leader,Cis-reg; leader;
RF03143,Archaea,"unclassified sequences (57.81%), Archaea (42.19%)","Archaea (54.33%), unclassified sequences (45.67%)",S15-Halobacteria,S15-Halobacteria ribosomal protein leader,Cis-reg; leader;
RF03144,Archaea/Mixed,"unclassified sequences (68.27%), Archaea (31.73%)","unclassified sequences (56.17%), Archaea (43.64%), Eukaryota (0.19%)",eL15-Euryarchaeota,eL15-Euryarchaeota ribosomal protein leader,Cis-reg; leader;