0.5 AA subs Thika virus AKH40285 Drosophila uncharacterized virus AKP18620
95|97 Kilifi Virus YP_009140560 Machany Virus (Dobs) KU754504 Unclassified Rosy apple aphid virus ABB89048 Picornavirales 95|86 Acyrthosiphon pisum virus NP_620557 TSA Clavigralla tomentosicollis GAJX01000318 TSA Euschistus heros GBER01001913
B: Dicistroviruses
TSA Bactrocera dorsalis GAKP01021200 TSA Ceratitis capitata GAMC01006902 0.5 AA subs TSA Bactrocera latifrons GDHF01000396 TSA Bactrocera cucurbitae GBXI01004087 TSA Fopius arisanus GBYB01002971 98|94 Goose dicistrovirus ALV83314 Empeyrat Virus (Sdef) KU754505 TSA Teleopsis dalmanni GBBP01093735 Sequence from Drosophila kikkawai [SRR346732] Cricket paralysis virus AKA63263 42|37 Nilaparvata lugens C virus AIY53985 Drosophila C Virus NP 044945 TSA Pontastacus leptodactylus GAFS01001458 44|28 Aphid lethal paralysis virus AEH26191 99|97 TSA Medicago sativa GAFF01020061 Rhopalosiphum padi virus ABX74939 TSA Nilaparvata lugens GAYF01148415 Cripavirus TSA Agave tequilana GAHU01086141 Himetobi P virus BAA32553 99|99 TSA Phaseolus vulgaris GAMK01054259 20|54 Black queen cell virus ABS82427 99|100 Triatoma virus AAF00472 Plautia stali intestine virus BAA21898
0.99 Homalodisca coagulata virus-1 ABC55703 92|87 Ancient Northwest Territories cripavirus AIM55450 100|99 TSA Colobanthus quitensis GCIB01076644 Antarctic picorna-like virus 1 AKG93960 30|50 Formica exsecta virus 1 AHB62420 87|37 100|94 Israeli acute paralysis virus AEL12438 Kashmir bee virus AAP32283 Acute bee paralysis virus AF150629 TSA Linepithema humile EZ933808 Solenopsis invicta virus-1 AAU85375 99|99 TSA Conwentzia psociformis GAYH01015373 Aparavirus TSA Menopon gallinae GAWR01012511 TSA Zorotypus caudelli GAYA01006867 65|35 10|57 Taura syndrome virus AFO53688 Macrobrachium rosenbergii Taihu virus AEE02024 94|58 Mud crab dicistrovirus ADR72923
98|47 TSA Procotyla fluviatilis GAKZ01048307 91|57 Laverivirus AHA86926 TSA Schmidtea mediterranea GBEE01003387 TSA Galloisiana yuasai GAWN01024221 96|96 TSA Stigmatomma oregonense GAXR01027179 TSA Metallyticus splendidus GATB01027408 TSA Camptotheca acuminata GACF01095404 98|44 TSA Silene latifolia JO773273 TSA Euroleon nostras GAXW01089633 C: Nodaviruses Drosophila melanogaster American nodavirus ACU32794 100|87 Flock house virus AEQ39075 0.5 AA subs 4|24 99|67 TSA Stigmatomma oregonense GAXR01015452 Black beetle virus CAA26238 Alphanodavirus 0|25 Boolarra virus AF329080 96|76 99|100 Newington Virus (Dimm) KU754529 99|66 Bat nodavirus AGN73379 TSA Bactrocera cucurbitae GBXI01012869 96|100 97|100 TSA Ceratitis capitata GAMC01011587 Covert mortality nodavirus AIL48199 Macrobrachium rosenbergii nodavirus AAO60068 Penaeus vannamei nodavirus ADV74764 98|96 Lutzomyia nodavirus AKP18615 Dicentrarchus labrax betanodavirus AET07013 99|98 Senegalese sole Iberian betanodavirus ACX71271 87|64 75|19 0|13 Epinephelus tauvina nervous necrosis virus AF319555 43|28 Asian seabass Nervous Necrosis Virus AEK48160 86|91 Sevenband grouper nervous necrosis virus AKE78836 Betanodavirus 100|94 Japanese flounder nervous necrosis virus ACN58225 Golden pompano nervous necrosis virus AEK48150 90|90 Barfin flounder virus ACF36168 100|99 Tiger puffer nervous necrosis virus ABY87293 Striped Jack nervous necrosis virus BAB64329 TSA Nilaparvata lugens GANM01015802 81|49 Pariacoto virus AF171942 Alphanodavirus 97|73 Mosinovirus AIO11151 Lunovirus AKA58518 52|50 Fesavirus 4 AII82234
97|77 Tetnovirus 2 ADK97710 69|22 TSA Opisthorchis felineus GBJA01011878 Tetnovirus 1 ADK97708 9|24 Craigies Hill virus (Dmel) AKH40302
62|62 Craigmillar Park Virus (Dsus) KU754525 Bat guano associated nodavirus ADI48250 77|41 Alphanodavirus ADF97523 Alphanodavirus 47|17 Santeuil nodavirus ADW54431 97|99 Orsay virus ADW54428
91|41 Le Blanc nodavirus AFU90716 TSA Panicum hallii JR063831 TSA Aleochara curtula GATW01051453 54|21 Plasmopara halstedii virus A ADK55578
D: Birnaviruses
Paralichthys olivaceus birnavirus ABW07822 75|70 Marine birnavirus AAN04574 95|95 Yellowtail ascites virus AAN04570 55|51 Infectious pancreatic necrosis virus ACD14075 Aquabirnavirus 0.5 AA subs 87|68 Victorian trout aquabirnavirus ALF95259 57|60 Tasmanian aquabirnavirus ALF95254 Infectious bursal disease virus ABG91145 Avibirnavirus 100|99 Blotched snakehead virus CAD30691 Blosnavirus Rotifer birnavirus strain Palavas CAX33878 94|83 Tellina virus 1 CAI74982 Espirito Santo virus AEW87520 88|98 Culex Y virus AFR34027 70|64 98|100 Mosquitoe x virus AFU34334 96|98 Culicine-associated Z virus AGW51781 Eridge Virus (Dimm) KU754528 93|88 Entomo- Drosophila X Virus AF196645 birnavirus TSA Eurytemora affinis GBGO01030594 TSA Panonychus ulmi GCAC01001531 Drosophila melanogaster birnavirus ACU32792 E: Rhabdoviruses
TSA Oropsylla silantiewi GAWY01012238 93|87 Sanxia Water Strider Virus 5 AJG39120 0.5 AA subs 71|50 Jingshan Fly Virus 2 AJG39108 20|43 Shuangao Bedbug Virus 2 AJG39134 89|87 Drosophila busckii Rhabdovirus KR822813 Lye Green Virus (Dobs) KU754522 Wuhan Mosquito Virus 9 AJG39218 Spodoptera frugiperda rhabdovirus KF947078 56|33 TSA Triodia sylvina GAVB01022634 96|96 Wuhan Ant Virus AJG39155
14|45 TSA Frankliniella occidentalis GAXD01021508 Taastrup virus AY423355 42|37 Di. longicaudata rhabdovirus ALU09129 Unclassified 95|75 Withyham Virus (Dobs) KU754523 Rhabdoviridae Drosophila subobscura Rhabdovirus KR822817 Drosophila sturtvanti Rhabdovirus KR822823 52|63 Shayang Fly Virus 3 AJG39131 Wuhan Fly Virus 3 AJG39162 TSA Musca domestica GBAB01012379 Wuhan House Fly Virus 2 AJG39173 Shuangao Insect Virus 6 AJG39136 99|98 Soybean cyst nematode virus AEF56733 Cherry Gardens Virus (Dsub) KU754524 97|75 Farmington virus YP 009091823 34|52 TSA Humulus lupulus LA363981 Tacheng Tick Virus 7 AJG39148
F: Reoviruses
Soudat Virus (Sdef) KU754531 Torrey Pines virus (Dmel) KP714078 18|55 Bombyx mori cypovirus 1 AAK20302 100|99 Lutzomyia reovirus 2 AKP18622 0.5 AA subs 65|75 TSA Helicoverpa armigera GBDM01000458 75|69 TSA Helicoverpa assulta GBTA01063990/91 83|89 Heliothis armigera cypovirus 5 ABV04399 Cypovirus 76|83 Thaumetopoea pityocampa cypovirus 5 AJC97790 Aedes pseudoscutellaris reovirus AAZ94069
53|76 Fako virus AIW39871 Dinovernavirus Antheraea mylitta cypovirus 4 ADH10220 Dendrolimus punctatus cypovirus 22 AIY60598 Inachis io cypovirus 2 AHJ14791 Grape Cabernet Sauvignon reovirus AKB94056 Raspberry latent virus ADO27688 Rice ragged stunt virus AAC36456 Oryzavirus 95|96 Acinopterus angulatus reovirus AFA28393 Spissistilus festinus reovirus AEC32488 Colorado tick fever virus AF133428 Coltireovirus Eyach virus AAM18342 Cryphonectria parasitica mycoreovirus-1 BAS02068 Mycoreovirus Mycoreovirus 3 BAC98431 Bloomfield virus (Dmel) AKH40310 Drosophila reovirus AKP18621 92|68 Grange Virus (Dsub) 7|33 42|54 TSA Delia antiqua GAWI01008154 GAWI01008660 TSA Teleopsis dalmanni GBBP01003533/34 TSA Hypothenemus hampei GDLS01017018 Mal de Rio Cuarto virus AAO73182 98|100 rice black-streaked dwarf virus AEI59023 Fiji disease virus AAK40249 Fijivirus 21|28 Diaphorina citri reovirus BAH28860 93|92 Nilaparvata lugens reovirus BAA08542 Cimodo virus AHF20703 Operophtera brumata reovirus ABB17205 G: Picornavirales
0.5 AA subs Fisavirus 1 AIY32625 94|83 Pow Burn Virus (Dsub) KU754519 TSA Anopheles sinensis GAFE01004028 Unclassified Husavirus ALE31139 97|92 Picornavirales 99|96 Posavirus 1 AKJ83380 Posavirus 3 AKJ83381 Posavirus 2 AER30034
H: Basally-branching Flaviviruses
0.5 AA subs TSA Sitobion avenae aphid GAPL01011202 Macrosiphum euphorbiae virus 1 ALK01984 Shuangao lacewing virus 2 ALL52886 97|91 Shayang fly virus 4 ALL52888 84|41 Eriocheir sinensis Cholera-like Virus AKM16625 38|43 TSA Eriocheir sinensis KA661626 Unclassified Xinzhou spider virus 2 ALL52885 Flaviviridae Soybean cyst nematode virus 5 YP_009028573 73|44 Tacheng tick virus 8 ALL52879 Hermitage Virus (Dimm) KU754511 82|76 TSA Conwentzia psociformis GAYH01026052 Takaungu Virus KU754513 Gentian Kobu-sho-associated virus BAM78286
I: Unclassified viruses cf. Poleroviruses and Sobemoviruses
0.5 AA subs Grom Virus (Dobs) KU754506 93|96 Prestney Burn Virus (Dsub) KU754507
26|31 Motts Mill virus KP714076 Ixodes scapularis associated virus 1 KM048318 95|84 80|54 Ixodes scapularis associated virus 2 KM048319 TSA Exoneura robusta HP930702 99|100 94|81 TSA Osmia cornuta GAGH01013362 95|87 TSA Frieseomelitta varia HP890469 Unclassified, TSA Euprymna scolopes GBHH01001052 cf. Polerovirus TSA Lygus hesperus GBHO01033620 89|83 Sobemovirus, TSA Anthonomus grandis GABY01018235 TSA Xanthostigma xanthostigma GAUI01015619 TSA Nilaparvata lugens GAYF01147345 99|100 81|72 Humaita-Tubiacanga virus KR003801 99|100 TSA Caligus rogercresseyi GAZX01036530 Braid Burn Virus (Dsus) KU754508 La Tartoire Virus (Sdef) KU754509 J: Iflaviruses
Thaumetopoea pityocampa iflavirus 1 AJC98140 30|28 Lymantria dispar iflavirus 1 AIF75200 0.5 AA subs 14|31 Bombyx mori iflavirus BAS18834 Antheraea pernyi iflavirus AHI87751 99|97 Heliconius erato iflavirus AHW98099 TSA Spodoptera exigua GARL01030594 Kakugo virus BAD06930 5|37 99|99 Deformed wing virus AHL46850 Iflavirus Varroa destructor virus-1 AAP51418 100|99 Formica exsecta virus 2 AHB62422 99|100 62|66 98|94 TSA Stigmatomma oregonense GAXR01027015 TSA Tetramorium bicarinatum GASM01001722 TSA Mischocyttarus flavitarsis GAXM01039151 Slow bee paralysis virus ABS84820 87|64 Graminella nigrifrons virus 1 AJT58559 Nilaparvata lugens honeydew virus 1 BAN19725 TSA Nilaparvata lugens GANM01013490 Laodelphax striatella honeydew virus 1 AHK05791 Laodelphax striatellus picorna-like virus 2 AIX94679 97|72 Nilaparvata lugens honeydew virus-2 BAN57352 Dinocampus coccinellae paralysis virus AIM39350 58|59 Venturia canescens picorna-like virus AAS37668 Nasonia vitripennis virus ACN94442 82|52 TSA Acanthoscurria geniculata GAZS01034153 Brevicoryne brassicae picorna-like virus ABP57198 TSA Ceratitis capitata GAMC01001920 0|43 TSA Bactrocera cucurbitae GBXI01014067 TSA Bactrocera dorsalis GAKP01000398 Kinkell Virus (Dsus) KU754510 99|82 TSA Ceratitis capitata GAMC01020602 92|64 TSA Colaphellus bowringi GBHN01000011 TSA Frankliniella occidentalis GAXD01025412 18|32 TSA Latrodectus hesperus GBCS01004151 TSA Ceratitis capitata GAMC01021094 TSA Fopius arisanus GBYB01006488 Sacbrood virus AFQ95416 99|80 TSA Apis mellifera GAZV01033456 98|95 Halyomorpha halys virus AGY34702 86|44 TSA Chrysopa pallens GAGF01025652 Bat feces associated picorna-like virus AFH02745
100|97 TSA Monomorium pharaonis LA848411 52|41 Twyford virus (Dmel) AKH40288 Iflavirus La Jolla virus (Dmel) AKH40287 77|50 Lygus lineolaris virus 1 AEL30247 Tomato matilda virus AEM65163 58|67 Opsiphanes invirae iflavirus 1 AKN81079 Spodoptera exigua iflavirus 1 AET36829 20|62 Infectious flacherie virus NP 620559 Ectropis obliqua picorna-like virus NP 919029 Perina nuda virus AF323747 Spodoptera exigua iflavirus 2 AFQ98017 TSA Parasteatoda tepidariorum IAAA01000675 K: Unclassified viruses near Tombusviridae
Pelargonium flower break virus ABB79925
0.5 AA subs 97|97 TSA Humulus lupulus LA672832 TSA Persicaria minor GALN01471975 Carmovirus Melon necrotic spot virus AGC04692 Pea stem necrosis virus BAC78642 95|81 Furcraea necrotic streak virus ACW84407 90|79 Olive mild mosaic virus AAU93816 99|98 Galinsoga mosaic virus CAA73863 Gallantivirus 43|43 Pear latent virus AAM49803 0|40 Eggplant mottled crinkle virus AGC82911 96|98 Tombusvirus Lisianthus necrosis virus AAY98781 99|97 Artichoke mottled crinkle virus CAA44356 43|52 Tobacco necrosis virus D AAC57946 Oat chlorotic stunt virus CAA58797 Avenavirus 96|85 98|99 Bean leafroll virus AF441393 Luteovirus TSA Trifolium pratense GAOU01042834 TSA Lolium perenne GAYX01044685 96|93 Rice virus X BAA97674 Sweet clover necrotic mosaic virus AAA47456 Dianthovirus Papaya meleira virus AID45851 Papaya umbra virus AJF45986 97|95 77|62 Ethiopian tobacco bushy top virus AIL27641 Opium poppy mosaic virus AHZ65104 Diaporthe ambigua RNA virus 1 AF142094 71|65 TSA Elysia cornigera GBRW01030946 85|67 TSA Extatosoma tiaratum GAWG01012535 TSA Lygus hesperus GBHO01016499 98|99 97|94 TSA Notostira elongata GASV01003398 TSA Anoplophora glabripennis GALX01005075 39|69 Corseley Virus (Dsub) KU754520 TSA Drosophila pseudoananassae GADR01013245/46 GADR01005481 Diaphorina citri associated C virus ALV85423 97|95 TSA Ostrinia nubilalis GAVD01019588 68|47 Tartou Virus (Sdef) KU754521 TSA Brachycistis timberlakei GAZU01004632 95|65 TSA Cercopis vulnerata GAUN01003982 6|33 TSA Atelura formicaria GAYJ01319232 L: Negeviruses and relatives
Brejeira virus AIS40881 0.5 AA subs Piura virus AIX97865 49|67 Negevirus Nona 1 BAS69360 Daeseongdong virus 1 YP 009182191 Negevirus Negev like virus 174 CCV01575 Negev virus AFI24672 Ngewotan virus AFY98072 81|39 Loreto virus AFI24693 TSA Anolis carolinensis GAFD01025142 2|21 Citrus leprosis virus cytoplasmic type 2 AGM16551 Cilevirus Hibiscus green spot virus YP 004928118 Higrevirus Goutanap virus AIX97862 20|60 99|87 Wallerfield virus AHH60914 100|89 Dezidougou virus AFI24669 27|53 Negevirus Santana virus AFI24675 Tanay virus AHX42602 89|47 Blueberry necrotic ring blotch virus AEQ55300 TSA Camellia sinensis GARM01000567 51|25 TSA Argochrysis armilla GAXO01029871 98|86 Blackford Virus (Dtri) KU754514 51|6 TSA Bactrocera dorsalis GAKP01015888 36|3 TSA Cotesia vestalis GAKG01005025 99|92 TSA Latrodectus hesperus GBCS01005187 85|21 Bofa Virus KU754515 Buckhurst Virus (Dobs) KU754516 64|27 TSA Monomorium pharaonis LA822010 10|4 TSA Musca domestica GARN01041480 Boutonnet Virus KU754539 Muthill Virus (Dimm) KU754517 Brandeis Virus (Dmel) SRR486227 SRR486228 Marsac Virus (Sdef) KU754518 TSA Ceratitis capitata GAMC01007262 Rehmannia mosaic virus ABN59374 99|99 Tobacco mosaic virus AFX68419 Tomato mottle mosaic virus AJL35118 93|86 Pepper mild mottle virus BAS32795 97|92 Yellow tailflower mild mottle virus AGZ63349 Tobamovirus 92|55 TSA Oncidium Gower Ramsey JL909144 62|60 99|100 87|84 Turnip vein clearing virus ACA02824 Passion fruit mosaic virus AEF01559 Plumeria mosaic virus AIA57390 Clitoria yellow mottle virus AEW50165 Chinese wheat mosaic virus CAC39427 Soil borne cereal mosaic virus AF146279 99|97 Furovirus Oat golden stripe virus CAB57882 99|99 Sorghum chlorotic spot virus NP 659020 100|99 Beet soil borne virus ABU63610 Potato mop-top virus ALM54964 99|99 Pomovirus Broad bean necrosis virus BAA34692 Indian peanut clump virus NP 835282 Peclavirus Tobacco rattle virus AKA63704 Tobravirus TSA Rhazya stricta GAMW01005974