SUPERFAMILY 1.75 HMM library and genome assignments server

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NHL repeat family domain assignments


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Select to display   Genome       Domains   Proteins
No Yes ALL   20713 20713
No Yes Homo sapiens 76_38 Human 7 7
No Yes Pan troglodytes 76_2.1.4 Chimpanzee 3 3
No Yes Gorilla gorilla 76_3.1 Western gorilla 4 4
No Yes Pongo abelii 76_2 Sumatran orangutan 3 3
No Yes Nomascus leucogenys 76_1.0 Northern white-cheeked gibbon 3 3
No Yes Papio anubis 76 Olive baboon 3 3
No Yes Macaca mulatta 76_1 Rhesus monkey 5 5
No Yes Callithrix jacchus 76_3.2.1 White-tufted-ear marmoset 8 8
No Yes Otolemur garnettii 76_3 Small-eared galago 3 3
No Yes Microcebus murinus 76_1 Gray mouse lemur 3 3
No Yes Rattus norvegicus 76_5.0 Norway rat 3 3
No Yes Mus musculus 76_38 House mouse 10 10
No Yes Dipodomys ordii 76_1 Ord's kangaroo rat 2 2
No Yes Ictidomys tridecemlineatus 76_2 Thirteen-lined ground squirrel 2 2
No Yes Heterocephalus glaber v1.7-2 Naked mole-rat 3 3
No Yes Cavia porcellus 76_3 Domestic guinea pig 3 3
No Yes Oryctolagus cuniculus 76_2 Rabbit 4 4
No Yes Ochotona princeps 76 American pika 3 3
No Yes Tupaia belangeri 76 Northern tree shrew 1 1
No Yes Sus scrofa 76_10.2 Pig 2 2
No Yes Bos taurus 76_3.1 Cattle 3 3
No Yes Ovis aries 76_3.1 Sheep 2 2
No Yes Vicugna pacos 76_1 Alpaca 1 1
No Yes Tursiops truncatus 76_1 Bottlenose dolphin 2 2
No Yes Mustela putorius furo 76_1.0 Domestic ferret 3 3
No Yes Ailuropoda melanoleuca 76_1 Giant panda 3 3
No Yes Canis familiaris 76_3.1 Dog 2 2
No Yes Felis catus 76_6.2 Domestic cat 3 3
No Yes Equus caballus 76_2 Horse 3 3
No Yes Myotis lucifugus 76_2.0 Little brown bat 3 3
No Yes Pteropus vampyrus 76_1 Large flying fox 3 3
No Yes Sorex araneus 76_1 European shrew 1 1
No Yes Erinaceus europaeus 76 Western European hedgehog 2 2
No Yes Loxodonta africana 76_3 African savanna elephant 3 3
No Yes Echinops telfairi 76 Small Madagascar hedgehog 2 2
No Yes Dasypus novemcinctus 76_2 Nine-banded armadillo 4 4
No Yes Choloepus hoffmanni 76_1 Hoffmann's two-fingered sloth 1 1
No Yes Macropus eugenii 76_1.0 Tammar wallaby 2 2
No Yes Sarcophilus harrisii 76_7.0 Tasmanian devil 4 4
No Yes Monodelphis domestica 76_5 Gray short-tailed opossum 3 3
No Yes Ornithorhynchus anatinus 76_5 Platypus 3 3
No Yes Saccoglossus kowalevskii v3.0   36 36
No Yes Petromyzon marinus 76_7.0 Sea lamprey 2 2
No Yes Meleagris gallopavo 76_2 Turkey 3 3
No Yes Gallus gallus 76_4 Chicken 3 3
No Yes Anas platyrhynchos 76_1.0 Mallard 2 2
No Yes Taeniopygia guttata 76_3.2.4 Zebra finch 3 3
No Yes Ficedula albicollis 76_1.0 Collared flycatcher 3 3
No Yes Pelodiscus sinensis 76_1.0 Chinese soft-shelled turtle 3 3
No Yes Anolis carolinensis 76_2.0 Green anole 3 3
No Yes Xenopus laevis African clawed frog 6 6
No Yes Xenopus tropicalis 76_4.2 Tropical clawed frog 3 3
No Yes Latimeria chalumnae 76_1 Coelacanth 4 4
No Yes Lepisosteus oculatus 76 Spotted gar 3 3
No Yes Gadus morhua 76_1 Atlantic cod 4 4
No Yes Tetraodon nigroviridis 76_8 Spotted green pufferfish 6 6
No Yes Takifugu rubripes 76_4 Torafugu 6 6
No Yes Gasterosteus aculeatus 76_1 Three-spined stickleback 6 6
No Yes Oryzias latipes 76_1 Japanese medaka 5 5
No Yes Xiphophorus maculatus 76_4.4.2 Southern platyfish 4 4
No Yes Poecilia formosa 76 Amazon molly 5 5
No Yes Oreochromis niloticus 76_1.0 Nile tilapia 7 7
No Yes Astyanax mexicanus 76 Mexican tetra 5 5
No Yes Danio rerio 76_9 Zebrafish 8 8
No Yes Ciona intestinalis 76 Vase tunicate 1 1
No Yes Strongylocentrotus purpuratus v3.1 Purple sea urchin 4 4
No Yes Adineta vaga   15 15
No Yes Octopus bimaculoides 280   5 5
No Yes Crassostrea gigas 22 Pacific oyster 6 6
No Yes Lottia gigantea Owl limpet 6 6
No Yes Helobdella robusta   10 10
No Yes Capitella sp. I   6 6
No Yes Danaus plexippus OGS1.0 Monarch butterfly 3 3
No Yes Heliconius melpomene Postman butterfly 3 3
No Yes Bombyx mori Domestic silkworm 1 1
No Yes Nasonia vitripennis Jewel wasp 2 2
No Yes Apis mellifera 38.2d (Not maintained) Honey bee 9 9
No Yes Harpegnathos saltator v3.3 Jerdon's jumping ant 3 3
No Yes Linepithema humile v1.1 Argentine ant 3 3
No Yes Pogonomyrmex barbatus v1.2 Red harvester ant 2 2
No Yes Solenopsis invicta v.2.2.3 Red fire ant 3 3
No Yes Acromyrmex echinatior v3.8 Panamanian leafcutter ant 3 3
No Yes Atta cephalotes v1.1   2 2
No Yes Camponotus floridanus v3.3 Florida carpenter ant 3 3
No Yes Lucilia cuprina Australian sheep blowfly 4 4
No Yes Drosophila grimshawi 1.3   4 4
No Yes Drosophila willistoni 1.3   4 4
No Yes Drosophila pseudoobscura 2.13   4 4
No Yes Drosophila persimilis 1.3   20 20
No Yes Drosophila suzukii   4 4
No Yes Drosophila yakuba 1.3   4 4
No Yes Drosophila simulans 1.3   2 2
No Yes Drosophila sechellia 1.3   4 4
No Yes Drosophila melanogaster 76_5 Fruit fly 16 16
No Yes Drosophila erecta 1.3   4 4
No Yes Drosophila ananassae 1.3   4 4
No Yes Drosophila virilis 1.2   4 4
No Yes Drosophila mojavensis 1.3   4 4
No Yes Megaselia scalaris 22   1 1
No Yes Aedes aegypti 55 (Not maintained) Yellow fever mosquito 3 3
No Yes Culex pipiens quinquefasciatus Southern house mosquito 4 4
No Yes Anopheles darlingi 22 American malaria mosquito 2 2
No Yes Anopheles gambiae 49_3j African malaria mosquito 4 4
No Yes Tribolium castaneum 3.0 Red flour beetle 5 5
No Yes Pediculus humanus corporis (Early assembly) Human body louse 4 4
No Yes Acyrthosiphon pisum Pea aphid 3 3
No Yes Rhodnius prolixus 22   3 3
No Yes Daphnia pulex Common water flea 3 3
No Yes Strigamia maritima 22   5 5
No Yes Sarcoptes scabiei   5 5
No Yes Tetranychus urticae Two-spotted spider mite 3 3
No Yes Ixodes scapularis (Preliminary) Black-legged tick 3 3
No Yes Pristionchus pacificus   2 2
No Yes Meloidogyne incognita Southern root-knot nematode 1 1
No Yes Meloidogyne hapla   1 1
No Yes Onchocerca volvulus 22   5 5
No Yes Brugia malayi WS250 Agent of lymphatic filariasis 7 7
No Yes Caenorhabditis japonica   3 3
No Yes Caenorhabditis brenneri   4 4
No Yes Caenorhabditis remanei   4 4
No Yes Caenorhabditis elegans 76_235 Roundworm 3 3
No Yes Caenorhabditis briggsae 2   1 1
No Yes Trichinella spiralis 22   3 3
No Yes Hymenolepis microstoma   1 1
No Yes Echinococcus multilocularis   2 2
No Yes Echinococcus granulosus   2 2
No Yes Taenia solium Pork tapeworm 2 2
No Yes Schistosoma mansoni   2 2
No Yes Acropora digitifera v1.0   35 30
No Yes Nematostella vectensis 1.0 Starlet sea anemone 13 13
No Yes Hydra vulgaris   3 3
No Yes Amphimedon queenslandica   1 1
No Yes Trichoplax adhaerens   2 2
No Yes Naegleria gruberi   2 2
No Yes Emiliania huxleyi CCMP1516   2 2
No Yes Microcystis aeruginosa NIES-843   1 1
No Yes Streptomyces griseus subsp. griseus NBRC 13350   1 1
No Yes Rhodococcus jostii RHA1   4 4
No Yes Rhodococcus opacus B4   1 1
No Yes Mycobacterium intracellulare ATCC 13950   1 1
No Yes Mycobacterium avium 104   1 1
No Yes Mycobacterium canettii CIPT 140010059   2 2
No Yes Mycobacterium africanum GM041182   2 2
No Yes Mycobacterium tuberculosis KZN 1435   2 2
No Yes Mycobacterium tuberculosis   2 2
No Yes Mycobacterium bovis BCG str. Pasteur 1173P2   2 2
No Yes Mycobacterium rhodesiae NBB3   1 1
No Yes Mycobacterium marinum M   5 5
No Yes Thermincola potens JR   1 1
No Yes Desulfosporosinus orientis DSM 765   2 1
No Yes Desulfotomaculum acetoxidans DSM 771   1 1
No Yes Syntrophomonas wolfei subsp. wolfei str. Goettingen   1 1
No Yes Spirosoma linguale DSM 74   1 1
No Yes Candidatus Solibacter usitatus Ellin6076   1 1
No Yes Granulicella tundricola MP5ACTX9   2 1
No Yes Granulicella mallensis MP5ACTX8   2 2
No Yes Candidatus Nitrospira defluvii   2 1
No Yes Methanocella arvoryzae MRE50   1 1
No Yes Methanocella paludicola SANAE   1 1
No Yes Methanosarcina barkeri str. Fusaro   1 1
No Yes Methanosphaerula palustris E1-9c   9 8
No Yes Methanoregula boonei 6A8   1 1
No Yes Methanoculleus bourgensis MS2   1 1
No Yes Xenopus (Silurana) tropicalis v7.1 (annotation v7.2) Tropical clawed frog 4 4
No Yes Drosophila melanogaster FlyBase 5.12 (FlyBase) Fruit fly 13 13
No Yes Anopheles gambiae VectorBase AgamP3.6 (VectorBase) African malaria mosquito 4 4
No Yes Ascaris suum Victoria/Ghent Pig roundworm 2 2
No Yes Caenorhabditis elegans WormBase WS218 (WormBase) Roundworm 3 3
No Yes Streptomyces collinus Tu 365   2 2
No Yes Mycobacterium sp. MOTT36Y   1 1
No Yes Mycobacterium sp. JDM601   1 1
No Yes Mycobacterium liflandii 128FXT   3 3
No Yes Mycobacterium yongonense 05-1390   1 1
No Yes Mycobacterium intracellulare MOTT-64   1 1
No Yes Mycobacterium indicus pranii MTCC 9506   1 1
No Yes Mycobacterium intracellulare MOTT-02   1 1
No Yes Mycobacterium avium subsp. paratuberculosis MAP4   1 1
No Yes Mycobacterium avium subsp. paratuberculosis K-10   1 1
No Yes Mycobacterium canettii CIPT 140070017   2 2
No Yes Mycobacterium canettii CIPT 140060008   2 2
No Yes Mycobacterium canettii CIPT 140070008   2 2
No Yes Mycobacterium canettii CIPT 140070010   2 2
No Yes Mycobacterium tuberculosis EAI5/NITR206   2 2
No Yes Mycobacterium tuberculosis EAI5   2 2
No Yes Mycobacterium tuberculosis CAS/NITR204   2 2
No Yes Mycobacterium tuberculosis str. Beijing/NITR203   2 2
No Yes Mycobacterium tuberculosis UT205   2 2
No Yes Mycobacterium tuberculosis RGTB423   1 1
No Yes Mycobacterium tuberculosis RGTB327   2 2
No Yes Mycobacterium tuberculosis CTRI-2   2 2
No Yes Mycobacterium tuberculosis str. Erdman = ATCC 35801   2 2
No Yes Mycobacterium tuberculosis KZN 605   2 2
No Yes Mycobacterium tuberculosis KZN 4207   2 2
No Yes Mycobacterium tuberculosis CCDC5180   2 2
No Yes Mycobacterium tuberculosis CCDC5079   2 2
No Yes Mycobacterium tuberculosis CCDC5079   2 2
No Yes Mycobacterium tuberculosis H37Ra   2 2
No Yes Mycobacterium tuberculosis str. Haarlem/NITR202   1 1
No Yes Mycobacterium tuberculosis str. Haarlem   2 2
No Yes Mycobacterium tuberculosis F11   2 2
No Yes Mycobacterium tuberculosis H37Rv   2 2
No Yes Mycobacterium tuberculosis CDC1551   2 2
No Yes Mycobacterium bovis AF2122/97   2 2
No Yes Mycobacterium bovis BCG str. Korea 1168P   2 2
No Yes Mycobacterium bovis BCG str. Mexico   2 2
No Yes Mycobacterium bovis BCG str. Tokyo 172   2 2
No Yes Mycobacterium kansasii ATCC 12478   5 5
No Yes Desulfosporosinus meridiei DSM 13257   3 2
No Yes Clostridium autoethanogenum DSM 10061   1 1
No Yes Desulfovibrio gigas DSM 1382 = ATCC 19364   3 2
No Yes Homo sapiens 75_37 (old version GRC) Human 8 8
No Yes Homo sapiens (NCBI version) Human 5 5
No Yes Mus musculus 63_37 (longest transcript per gene) (Duplicate) House mouse 3 3
No Yes Loa loa v3.3 (Request) Eye worm 4 4
No Yes Wuchereria bancrofti v1.0 (Request) Agent of lymphatic filariasis 4 4
No Yes Brugia malayi v1.0 (Duplicate) Agent of lymphatic filariasis 4 4
No Yes Mycobacterium tuberculosis H37Rv (Duplicate of ex)   2 2
No Yes Homo sapiens 69_37 Human 3 3
No Yes Pan troglodytes 69_2.1.4 Chimpanzee 3 3
No Yes Gorilla gorilla 69_3.1 Western gorilla 3 3
No Yes Pongo abelii 69_2 Sumatran orangutan 3 3
No Yes Nomascus leucogenys 69_1.0 Northern white-cheeked gibbon 3 3
No Yes Macaca mulatta 69_1 Rhesus monkey 3 3
No Yes Callithrix jacchus 69_3.2.1 White-tufted-ear marmoset 3 3
No Yes Otolemur garnettii 69_3 Small-eared galago 3 3
No Yes Microcebus murinus 69_1 Gray mouse lemur 3 3
No Yes Rattus norvegicus 69_3.4 Norway rat 3 3
No Yes Mus musculus 69_38 House mouse 3 3
No Yes Dipodomys ordii 69_1 Ord's kangaroo rat 2 2
No Yes Ictidomys tridecemlineatus 69_2 Thirteen-lined ground squirrel 2 2
No Yes Cavia porcellus 69_3 Domestic guinea pig 3 3
No Yes Oryctolagus cuniculus 69_2 Rabbit 3 3
No Yes Ochotona princeps 69 American pika 3 3
No Yes Tupaia belangeri 69 Northern tree shrew 1 1
No Yes Sus scrofa 69_10.2 Pig 2 2
No Yes Bos taurus 69_3.1 Cattle 3 3
No Yes Vicugna pacos 69_1 Alpaca 1 1
No Yes Tursiops truncatus 69_1 Bottlenose dolphin 2 2
No Yes Mustela putorius furo 69_1.0 Domestic ferret 3 3
No Yes Ailuropoda melanoleuca 69_1 Giant panda 3 3
No Yes Canis familiaris 69_3.1 Dog 2 2
No Yes Felis catus 69 Domestic cat 1 1
No Yes Equus caballus 69_2 Horse 3 3
No Yes Myotis lucifugus 69_2.0 Little brown bat 3 3
No Yes Pteropus vampyrus 69_1 Large flying fox 3 3
No Yes Sorex araneus 69_1 European shrew 1 1
No Yes Erinaceus europaeus 69 Western European hedgehog 2 2
No Yes Loxodonta africana 69_3 African savanna elephant 3 3
No Yes Echinops telfairi 69 Small Madagascar hedgehog 2 2
No Yes Choloepus hoffmanni 69_1 Hoffmann's two-fingered sloth 1 1
No Yes Macropus eugenii 69_1.0 Tammar wallaby 2 2
No Yes Sarcophilus harrisii 69_7.0 Tasmanian devil 3 3
No Yes Monodelphis domestica 69_5 Gray short-tailed opossum 3 3
No Yes Ornithorhynchus anatinus 69_5 Platypus 2 2
No Yes Petromyzon marinus 69_7.0 Sea lamprey 2 2
No Yes Meleagris gallopavo 69_2 Turkey 2 2
No Yes Gallus gallus 69_2 Chicken 3 3
No Yes Taeniopygia guttata 69_3.2.4 Zebra finch 3 3
No Yes Pelodiscus sinensis 69_1.0 Chinese soft-shelled turtle 2 2
No Yes Anolis carolinensis 69_2.0 Green anole 3 3
No Yes Xenopus tropicalis 69_4.2 Tropical clawed frog 2 2
No Yes Latimeria chalumnae 69_1 Coelacanth 4 4
No Yes Gadus morhua 69_1 Atlantic cod 4 4
No Yes Tetraodon nigroviridis 69_8 Spotted green pufferfish 6 6
No Yes Takifugu rubripes 69_4 Torafugu 4 4
No Yes Gasterosteus aculeatus 69_1 Three-spined stickleback 4 4
No Yes Oryzias latipes 69_1 Japanese medaka 5 5
No Yes Xiphophorus maculatus 69_4.4.2 Southern platyfish 4 4
No Yes Oreochromis niloticus 69_1.0 Nile tilapia 5 5
No Yes Danio rerio 69_9 Zebrafish 5 5
No Yes Ciona intestinalis 69 Vase tunicate 1 1
No Yes Drosophila melanogaster 69_5 Fruit fly 4 4
No Yes Caenorhabditis elegans 69_215 Roundworm 3 3
No Yes 2_050719S (meta-genome)   1 1
No Yes 4_Deep_abyss (meta-genome)   1 1
No Yes Dump bottom (Dump bottom) (meta-genome)   3 3
No Yes Guerrero Negro salt ponds hypersaline mat 04(N) (meta-genome)   1 1
No Yes Hot spring microbial community from Yellowstone Hot Springs, sample YNP16 from Fairy Spring Red Layer (meta-genome)   1 1
No Yes Methylotrophic community from Lake Washington sediment combined (v2) (meta-genome)   1 1
No Yes Methylotrophic community from Lake Washington sediment Formaldehyde enrichment (meta-genome)   1 1
No Yes NCBI 2017_08 genome   15800 15737
No Yes Olavius algarvensis endosymbiont metagenome Delta1 (meta-genome)   1 1
No Yes STRING v9.0.5 (STRING)   296 294
No Yes Uniprot 2018_03 genome   2921 2841
No Yes Wastewater Terephthalate-degrading communities from Bioreactor (meta-genome)   2 2
No Yes Global Ocean Sampling Expedition (GOS)   18 18
No Yes NCBI plasmid sequences (Plasmids)   4 4
No Yes PDB chains (SCOP 1.75) (PDB)   2 2
No Yes Protein Data Bank (all PDB sequenc)   20 20
No Yes SCOP2 SCOPe CATH ECOD (all domain sequ)   55 55
No Yes TargetDB (Targets)   8 8

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