>NC_002645_HCoV-229E_inf-1_N_25686..26855_1170bp_389aa
------------------------MATVKW------ADASEPQR------GRQGR-----
---IP----------YSLYSPLLV-DSEQPWKVIPRNLVPINKK-DKNKLIGYWNVQKR-
-FRTRKGKRVDLSPKLHFYYLGTGPHKDAKFRERVEGVVWVAVDGAKTEP-TGYGVRRKN
SEPEIP-HFNQK--LPNG-VTVVEEPDSRAPSRSQSRSQSR--------------GRGES
KPQSRNP-------------------------------SSDRNH-NSQDD-----IMKAV
AAALKSLGFDKPQEKDKKSAK--------TGTPKPSRNQSPASSQTSAKSLARSQSSETK
EQKHEMQKPRWKRQPNDDVTSNVTQCFGPRDLDH---NFGSAGVVANGVKAKGYPQFAEL
VPSTAAMLFDSHIVS---KESGNTV--------VLTFTTRVTVPKDHPHLGKFL----EE
LNAF----------------TREMQQHPLLNPSALEFNPSQTSPATA-------------
---------------EPVRDEVSI---------ETDIIDEVN--------------
>NC_005831_HCoV-NL63_AmsterdamI_N_26133..27266_1134bp_377aa
------------------------MASVNW----------ADDR------AARKKF----
---PP----------PSFYMPLLVSSDKAPYRVIPRNLVPIGKG-NKDEQIGYWNVQER-
-WRMRRGQRVDLPPKVHFYYLGTGPHKDLKFRQRSDGVVWVAKEGAKTVN-TSLGNRKRN
QKPLEP-KFSIA--LPPE-LSVV---EFEDRSNNSSRAS----------------SRSST
RNNSRDS-----------------------SRSTSRQQSRTRSDSNQSSSD----LVAAV
TLALKNLGFDNQSKSPSSSGT--------STPKKPNKPLSQPRAD---------------
-KPSQLKKPRWKRVPTRE--ENVIQCFGPRDFNH---NMGDSDLVQNGVDAKGFPQLAEL
IPNQAALFFDSEVST---DEVGDNV--------QITYTYKMLVAKDNKNLPKFI----EQ
ISAF--------TKPSSIKEMQSQSSHVAQNTVL--NASIPESKPLA-------------
---------------DDDSA-------------IIEIVNEVLH-------------
>NC_002306_TGEV_PUR46-MAD_N_26917..28065_1149bp_382aa
--------------------MANQGQRVSWGDESTKTRGRSNSR------GRKNNN----
---IP----------LSFFNPITLQQGSKFWNLCPRDFVPKGIG-NRDQQIGYWNRQTR-
-YRMVKGQRKELPERWFFYYLGTGPHADAKFKDKLDGVVWVAKDGAMNKP-TTLGSRGAN
NESKAL-KFDGK--VPGE-FQLE-VNQSRDNSRSRSQSR----------------SRSRN
RSQSRG-----------------------------RQQFNNKKDDS---------VEQAV
LAALKKLGVDTEKQQQR--------------SRSKSKERSNSKTR--------------D
TTPKNENKHTWKRTAGKG---DVTRFYGARSSSA---NFGDTDLVANGSSAKHYPQLAEC
VPSVSSILFGSYWTS---KEDGDQI--------EVTFTHKYHLPKDDPKTGQFL----QQ
INAY--------ARPSEVAKEQRKRKSRSKSAERSEQDVVPDALIEN-------------
---------------YTDVFDDT----------QVEIIDEVTN-------------
>NC_003436_PEDV_CV777_N_26374..27699_1326bp_441aa
------------------------MASVSF-----------QDR------GRK--R----
---VP----------LSLYAPLRVTNDKPLSKVLANNAVPTNKG-NKDQQIGYWNEQIR-
-WRMRRGERIEQPSNWHFYYLGTGPHGDLRYRTRTEGVFWVAKEGAKTEP-TNLGVRKAS
EKPIIP-KFSQQ--LPSV-VEIV-EPNTPPASRANSRSRSRGNGNNRSRSPSNNRGNNQS
RGNSQNRGNNQGRGASQNRGGNNNNNNKSRNQSNNRNQSNDRGGVTSRDD-----LVAAV
KDALKSLGIGENPDRHKQQQKPKQEKSDNSGKNTPKKNKSRATSK---------------
ER-DLKDIPEWRRIPKGE--NSVAACFGPRGGFK---NFGDAEFVEKGVDASGYAQIASL
APNVAALLFGGNVAV---RELADSY--------EITYNYKMTVPKSDPNVELLV----SQ
VDAF-------KTGNAKLQRKKEKKNKRETTLQQHEEAIYDDVGAPS-------------
---------------DVTHANLEWDTAVDGGDTAVEIINEIFD-------TGN---
>DQ811787_PRCV_ISU-1_N_25881..27029_1149bp_382aa
--------------------MASQGQRVSWVDESTKTHGRSNSR------GRKSNN----
---IP----------LSFFNPITLQQGSKFWNLCPRDFVPKGIG-NRDQQIGYWNRQTR-
-YRMVKGQRKELPERWFFYYLGTGPHADAKFKDKLDGVVWVAKDGVMNKP-TTLGSRGAN
NESKAL-RFDGK--VPGE-FQLE-VNQSRDNSRSRSQSR----------------SRSRN
RSQSRG-----------------------------RQQSNNKKDDS---------VEQAV
LAALKKLGVDTEKQQQR--------------SRSKSKERSNSKTR--------------D
TTPKNENKHTWKRTAGKG---DVTRFYGARSSSA---NFGDSDLVANGSSAKHYPQLAEC
VPSVSSILFGSYWTS---KEDGDQI--------EVTFTHKYHLPKDDPKTEQFL----QQ
INAY--------ARPSEVAKEQRKRKSRSKSAERSEQEVVPDSLIEN-------------
---------------YTDVFDDT----------QVEMIDEVTN-------------
>AY994055_FIPV_79-1146_N_27014..28147_1134bp_377aa
--------------------MATQGQRVNWGDEPSKRRGRSNSR------GRKNND----
---IP----------LSFYNPITLEQGSKFWNLCPRDLVPKGIG-NKDQQIGYWNRQIR-
-YRIVKGQRKELAERWFFYFLGTGPHADAKFKDKIDGVFWVARDGAMNKP-TTLGTRGTN
NESK-PLRFDGK--IPPQ-FQLE-VNRSRNNSRSGSQSR----------------SVSRN
RSQSRG-----------------------------RHHSNNQNNN----------VEDTI
VAVLEKLGVTDKQRSRS-----------------KPRERSDSKPR--------------D
TTPKNANKHTWKKTAGKG---DVTTFYGARSSSA---NFGDSDLVANGNAAKCYPQIAEC
VPSVSSIIFGSQWSA---EEAGDQV--------KVTLTHTYYLPKDDAKTSQFL----EQ
IDAY--------KRPSEVAKDQRQRRSRSKSADK-KPEELSVTLVEA-------------
---------------YTDVFDDT----------QVEMIDEVTN-------------
>NC_009657_BtCoV-G1_BtCoV/512/2005_N_26372..27556_1185bp_394aa
------------------------MASVKF-----------QPR------GRSKGR----
---VP----------LSLFAPLRVTDEKPLYKVLPNNAVPQGMG-GKDQQIGYWVEQQR-
-WRMRRGDRVDLPSNWHFYFLGTGPHSDLPFRKRTDGVFWVAIDGAKTQP-TGLGVRKSS
EKPLVP-KFKNK--LPNN-VEIV-EPTTPNNSRANSRSRSRG-------------GQSNS
RGNSQNRG------------------DKSRNQSRNRSQSNDRGS-DSRDD-----LVAAV
KKALEDLGVGAAKPKGKTQ----------SGKNTP-KNKSRSGSV---------------
QRAEAKDKPEWRRTPSGD--ESVEVCFGPRGGTR---NFGSSEFVAKGVNAPGYAQAASL
VPGAAALLFGGNVAT---KEMADGV--------EITYTYKMLVPKDDKNLEIFL----AQ
VDAY-------KLGDPKPQRKVKRSRTPTPKPATEPVYDDVAADPTY-------------
---------------ANLEWDTTVED-------GVEMINEVFD-------TQN---
>EF203064_Bat-CoV-HKU2_HKU2/GD/430/2006_N_25469..26596_1128bp_375aa
------------------------MATVNW----GDAVEQAESR------GRK--R----
---IP----------LSLFAPLRVTDGKNFWNVMPRNGVPTGRG-NPDQQIGYWVEQKR-
-WRMQKGQRKDQPSNWHFYYLGTGPHADAPFRKRIQGVHWVAVDGAKTSP-TGLGVRNRN
KEPATP-QFGFQ--LPAD-VTVV-EATSRSASRSQSRSR----------------NQSQS
RSGAQTP----------------------------RVQQSSQAV-----D-----IVAAV
KQALADLGIASSQSKSQ------------SGKNTP-KPRSRAVSP----------APAPK
PARKQMDKPEWKRVPNSE--EDVRKCFGPRSASR---NFGDSDLVQHGVEAKHFPTIAEL
LPTQAALAFGSEITT---KEAGDFV--------EVTYHYVMKVSKTDKNLPRFL----EQ
VAAY--------SKPSQIRRSQSQQDLNVDAPAF--TPAPPATPVSR-------------
---------------NPDFPEE-----------EVEMVDEIIN-------------
>NC_005147_HCoV-OC43_OC43_N_29104..30450_1347bp_448aa
MSFTPGKQSS-SRASSGNRSGNGI---LKW-ADQSDQFRNVQTR------GRRAQPKQTA
TSQQP--SGGNVVPYYSWFSGITQFQKGKEFEFVEGQGVPIAPGVPATEAKGYWYRHNRR
SFKTADGNQRQLLPRWYFYYLGTGPHAKDQYGTDIDGVYWVASNQADVNTPADIVDRDPS
SDEAIPTRFPPGTVLPQG-YYIE---GSG-------RSAPN--------------SRSTS
RTSSRASS----------------------AGSRSRANSGNRTPTSGVTP-----DMADQ
IASLVLAKLGK--DATK-----------------P-QQVTKHTAK--------------E
VRQKILNKPRQKRSPNKQ--CTVQQCFGKRGPNQ---NFGGGEMLKLGTSDPQFPILAEL
APTAGAFFFGSRLELAKVQNLSGNPDEPQKDVYELRYNGAIRFDSTLSGFETIMKVLNEN
LNAYQ-QQDGMMNMSPKPQRQRGHKNGQGENDNI--SVAVPKSRVQQ-------------
---------------NKSRELTAEDIS------LLKKMDEPYT----EDTSEI---
>NC_006577_CoV-HKU1A_N1_N_28320..29645_1326bp_441aa
MSYTPGHY---AGSRSSSGNRSGILKKTSW-ADQSERNYQTFNR------GRKTQPKFTV
ST-QP--Q-GNTIPHYSWFSGITQFQKGRDFKFSDGQGVPIAFGVPPSEAKGYWYRHSRR
SFKTADGQQKQLLPRWYFYYLGTGPYANASYGESLEGVFWVANHQADTSTPSDVSSRDPT
TQEAIPTRFPPGTILPQG-YYVE---GSG-------RSASN--------------SRPGS
RSQSRGPN----------------------NRSLSRSNSNFRHSDSIVKP-----DMADE
IANLVLAKLGK--DS-K-----------------P-QQVTKQNAK--------------E
IRHKILTKPRQKRTPNKH--CNVQQCFGKRGPSQ---NFGNAEMLKLGTNDPQFPILAEL
APTPGAFFFGSKLDL-VKRDSEADS--PVKDVFELHYSGSIRFDSTLPGFETIMKVLEEN
LNAYV-NSNQNTDSDSLSSKPQRK--RGVKQLPE--QFDSLNLSAGT-------------
---------------QHISNDFTPEDHS-----LLATLDDPYV-----EDSVA---
>AY884001_CoV-HKU1B_N2_N_28209..29534_1326bp_441aa
MSYTPGHH---AGSRSSSGNRSGILKKTSW-VDQSERSHQTYNR------GRKPQPKFTV
ST-QP--Q-GNPIPHYSWFSGITQFQKGRDFKFPDGQGVPIAYGIPPSEAKGYWYKHNRR
SFKTADGQQKQLLPRWYFYYLGTGPYASSSYGDAHEGIFWVASHQADTSIPSDVSARDPT
IQEAIPTRFSPGTILPQG-YYVE---GSG-------RSASN--------------SRPGS
RSQSRGPN----------------------NRSLSRSNSNFRHSDSIVKP-----DMADE
IASLVLAKLGK--DS-K-----------------P-QQVTKQNAK--------------E
IRHKILMKPRQKRTPNKF--CNVQQCFGKRGPLQ---NFGNSEMLKLGTNDPQFPILAEL
APTPGAFFFGSKLEL---FKRDSDADSPSKDTFELRYSGSIRFDSTLPGFETIMKVLKEN
LDAY--VNSNQNTVSGSLSPKPQRKRGVKQSPES---FDSLNLSADT-------------
---------------QHISNDFTPEDHSLLATLDDPYVEDSVA-------------
>DQ339101_CoV-HKU1C_N5_N_28149..29474_1326bp_441aa
MSYTPGHH---AGSRSSSGNRSGILKKTSW-VDQSERSHQTYNR------GRKPQPKFTV
ST-QP--Q-GNPIPHYSWFSGITQFQKGRDFKFPDGQGVPIAYGIPPSEAKGYWYKHNRR
SFKTADGQQKQLLPRWYFYYLGTGPYASSSYGDAHEGIFWVASHQADTSIPSDVSARDPT
IQEAIPTRFSPGTILPQG-YYVE---GSG-------RSASN--------------SRPGS
RSQSRGPN----------------------NRSLSRSNSNFRHSDSIVKP-----DMADE
IASLVLAKLGK--DS-K-----------------P-QQVTKQNAK--------------E
IRHKILMKPRQKRTPNKF--CNVQQCFGKRGPLQ---NFGNSEMLKLGTNDPQFPILAEL
APTPGAFFFGSKLEL---FKRDSDADSPSKDTFELRYSGSIRFDSTLPGFETIMKVLKEN
LDAY--VNSNQNTVSGSLSPKPQRKRGVKQSPES---FDSLNLSADT-------------
---------------QHISNDFTPEDHSLLATLDDPYVEDSVA-------------
>NC_003045_BCoV_BCoV-ENT_N_29393..30739_1347bp_448aa
MSFTPGKQSS-SRASSGNRSGNGI---LKW-ADQSDQSRNVQTR------GRRAQPKQTA
TSQQP--SGGNVVPYYSWFSGITQFQKGKEFEFAEGQGVPIAPGVPATEAKGYWYRHNRR
SFKTADGNQRQLLPRWYFYYLGTGPHAKDQYGTDIDGVYWVASNQADVNTPADILDRDPS
SDEAIPTRFPPGTVLPQG-YYIE---GSG-------RSAPN--------------SRSTS
RASSRASS----------------------AGSRSRANSGNRTPTSGVTP-----DMADQ
IASLVLAKLGK--DAAK-----------------P-QQVTKQTAK--------------E
IRQKILNKPRQKRSPNKQ--CTVQQCFGKRGPNQ---NFGGGEMLKLGTSDPQFPILAEL
APTAGAFFFGSRLELAKVQNLSGNLDEPQKDVYELRYNGAIRFDSTLSGFETIMKVLNEN
LNAYQ-QQDGTMNMSPKPQRQRGQKNGQGENDNI--SVAAPKSRVQQ-------------
---------------NKIRELTAEDIS------LLKKMDEPFT----EDTSEI---
>NC_001846_MHV_MHV-A59_N_29669..31033_1365bp_454aa
MSFVPGQENAGGRSSSVNRAGNGILKKTTW-ADQTERGPNNQNR------GRRNQPKQTA
TT-QP--NSGSVVPHYSWFSGITQFQKGKEFQFAEGQGVPIANGIPASEQKGYWYRHNRR
SFKTPDGQQKQLLPRWYFYYLGTGPHAGASYGDSIEGVFWVANSQADTNTRSDIVERDPS
SHEAIPTRFAPGTVLPQG-FYVE---GSG-------RSAPA--------------SRSGS
RSQSRGPN------------------------NRARSSSNQRQPASTVKP-----DMAEE
IAALVLAKLGK--DAGQ-----------------P-KQVTKQSAK--------------E
VRQKILNKPRQKRTPNKQ--CPVQQCFGKRGPNQ---NFGGSEMLKLGTSDPQFPILAEL
APTVGAFFFGSKLEL--VKKNSGGADEPTKDVYELQYSGAVRFDSTLPGFETIMKVLNEN
LNAY------QKDGGADVVSPKPQRKGRRQAQEKKDEVDNVSVAKPK-------------
---------------SSVQRNVSRELTPEDRSLLAQILDDGVVPDGLEDDSNV---
>NC_007732_PHEV_VW572_N_28843..30192_1350bp_449aa
MSFTPGKQPS-SRASSGNRSGNGILK---W-ADQSDQSRNVQTR------GRRVQSKQTA
TSQQP--SGGTVVPYYSWFSGITQFQKGKEFEFAEGQGVPIAPGVPATEAKGYWYRHNRR
SFKTADGNQRQLLPRWYFYYLGTGPYAKDHYGTDIDGVFWVASNQADVNTPADIVDRDPS
SDEAIPTRFPPGTVLPQG-YYIE---GSG-------RSVPN--------------SRSTS
RASNRAPS----------------------SGSRSRANSGNRTSTSGVTP-----DMADQ
IASLVLAKLGK--DATK-----------------P-QQVTKQTAK--------------E
VRQKILNKPRQKRSPNKQ--CTVQQCFGKRGPNQ---NFGGGEMLKLGTSDPQFPILAEL
APTAGAFFFGSRLELAKVQNSSGNLDEPQKDVYELRYNGAIRFDSTLSGFETIMKVLNQN
LNAYQHQEDGMINISPKPQRQRGQKNGQVENDNV--SVAVPKSRVQQ-------------
---------------NKSRELTAEDIS------LLKKMDEPYT----EDTSEI---
>EF424621_AntelopeCoV_US/OH1/2003WD1418_N_29377..30723_1347bp_448aa
MSFTPGKQSS-SRASSGNRSGNGILK---W-ADQSDQSRNVQTR------GRRAQPKQTA
TSQQP--SGGNVVPYYSWFSGITQFQKGKEFEFAEGQGVPIAPGVPATEAKGYWYRHNRR
SFKTADGNQRQLLPRWYFYYLGTGPHAKDQYGTDIDGVFWVASNQADVNTPADILDRDPS
SDEAIPTRFPPGTVLPQG-YYIE---GSG-------RSAPN--------------SRSTS
RASSRASS----------------------AGSRSRANSGNRTPTSGVTP-----DMADQ
IASLVLAKLGK--DATK-----------------P-QQVTKQTAK--------------E
IRQKILNKPRQKRSPNKQ--CTVQQCFGKRGPNQ---NFGGGEMLKLGTSDPQFPILAEL
APTAGAFFFGSRLELAKVQNLSGNLDEPQKDVYELRYNGAIRFDSTLSGFETIMKVLNEN
LNAYQ-QQDGTMNMSPKPQRQRGQKNGQGENDNI--SVAAPKSRVQQ-------------
---------------NKIRELTAEDIS------LLKKMDEPFT----EDTSEI---
>EF424622_GiCoV_US/OH3-TC/2006_N_29361..30707_1347bp_448aa
MSFTPGKQSS-SRASSGNRSGNGI---LKW-ADQSDQSRNVQTR------GRRAQPKQTA
TSQQP--SGGNVVPYYSWFSGITQFQKGKEFEFAEGQGVPIAPGVPATEAKGYWYRHNRR
SFKTADGNQRQLLPRWYFYYLGTGPHAKDQYGTDIDGVFWVASNQADVNTPADILDRDPS
SDEAIPTRFPPGTVLPQG-YYIE---GSG-------RSAPN--------------SRSTS
RASSRASS----------------------AGSRSRANSGNRTPTSGVTP-----DMADQ
IASLVLAKLGK--DATK-----------------P-QQVTKQTAK--------------E
IRQKILNKPRQKRSPNKQ--CTVQQCFGKRGPNQ---NFGGGEMLKLGTSDPQFPILAEL
APTAGAFFFGSRLELAKVQNLSGNLDEPQKDVYELRYNGAIRFDSTLSGFETIMKVLNEN
LNAYQ-QQDGTMNMSPKPQRQRGQKNGQGENDNI--SVAAPKSRVQQ-------------
---------------NKIRELTAEDIS------LLKKMDEPFT----EDTSEI---
>NC_004718_SARS-human_Tor2_N_28120..29388_1269bp_422aa
------------MSDNGPQSNQRSAPRITF-GGPTDSTDNNQNG------GRNGARPKQR
---RP--Q-GLPNNTASWFTALTQ-HGKEELRFPRGQGVPINTNSGPDDQIGYYRRATRR
-VRGGDGKMKELSPRWYFYYLGTGPEASLPYGANKEGIVWVATEGALNTPKDHIGTRNPN
NNAATVLQLPQGTTLPKG-FYAE---GSRGGSQASSRSSSR--------------SRGNS
RNSTPGS---------------------------SRGNSPARMASGGGETALAL-LLLDR
LNQLESKVSGKGQQQQG-------------------QTVTKKSAA---------------
---EASKKPRQKRTATKQ--YNVTQAFGRRGPEQTQGNFGDQDLIRQGTDYKHWPQIAQF
APSASAFFGMSRIGM---EVTPSGT--------WLTYHGAIKLDDKDPQFKDNVILLNKH
IDAY-------KTFPPTEPKKDKKKKTDEAQPLPQRQKKQPTVTLLP-------------
---------------AADMDDFSRQLQNSMSGASADSTQA----------------
>AY304488_SARS-civet_SZ16_N_28134..29402_1269bp_422aa
------------MSDNGPQSNQRSAPRITF-GGPTDSTDNNQNG------GRNGARPKQR
---RP--Q-GLPNNTASWFTALTQ-HGKEELRFPRGQGVPINTNSGPDDQIGYYRRATRR
-VRGGDGKMKELSPRWYFYYLGTGPEASLPYGANKEGIVWVATEGALNTPKDHIGTRNPN
NNAATVLQLPQGTTLPKG-FYAE---GSRGGSQASSRSSSR--------------SRGNS
RNSTPGS---------------------------SRGNSPARMASGGGETALAL-LLLDR
LNQLESKVSGKGQQQQG-------------------QTVTKKSAA---------------
---EASKKPRQKRTATKQ--YNVTQAFGRRGPEQTQGNFGDQDLIRQGTDYKHWPQIAQF
APSASAFFGMSRIGM---EVTPSGT--------WLTYHGAIKLDDKDPQFKDNVILLNKH
IDAY-------KTFPPTEPKKDKKKKTDEAQPLPQRQKKQPTVTLLP-------------
---------------AADMDDFSRQLQNSMSGASADSTQA----------------
>NC_009694_SARS-bat_HKU3-1_N_28100..29365_1266bp_421aa
-------------MSDNGPQSQRSAPRITF-GGPADSNDNNQDG------GRSGARPKQR
---RP--Q-GLPNNTASWFTALTQ-HGKEELRFPRGQGVPINTNSGKDDQIGYYRRATRR
-VRGGDGKMKELSPRWYFYYLGTGPEASLPYGANKEGIVWVATEGALNTPKDHIGTRNPN
NNAAIVLQLPQGTTLPKG-FYAE---GSRGGSQSSSRSSSR--------------SRGNS
RNSTPGS---------------------------SRGSSPARLASGGGETALAL-LLLDR
LNQLESKVSGK--GQQQ-----------------PGQTVTKKSAA---------------
---EASKKPRQKRTATKQ--YNVTQAFGRRGPEQTQGNFGDQELIRQGIDYKHWPQIAQF
APSASAFFGMSRIGM---EVTPSGT--------WLTYHGAIKLDDKDPQFKDNVILLNKH
IDAY-------KTFPPTEPKKDKKKKTDEAQPLPQRQKKQPTVTLLP-------------
---------------AADMDDFSRQLQHSMSGASADSTQA----------------
>AY545919_SARS-badger_CFB/SZ/94/03_N_28127..29395_1269bp_422aa
------------MSDNGPQSNQRSAPRITF-GGPTDSTDNNQNG------GRNGARPKQR
---RP--Q-GLPNNTASWFTALTQ-HGKEELRFPRGQGVPINTNSGPDDQIGYYRRATRR
-VRGGDGKMKELSPRWYFYYLGTGPEASLPYGANKEGIVWVATEGALNTPKDHIGTRNPN
NNAATVLQLPQGTTLPKG-FYAE---GSRGGSQASSRSSSR--------------SRGNS
RNSTPGS---------------------------SRGNSPARMASGGGETALAL-LLLDR
LNQLESKVSGKGQQQQG-------------------QTVTKKSAA---------------
---EASKKPRQKRTATKQ--YNVTQAFGRRGPEQTQGNFGDQDLIRQGTDYKQWPQIAQF
APSASAFFGMSRIGM---EVTPSGT--------WLTYHGAIKLDDKDPQFKDNVILLNKH
IDAY-------KTFPPTEPKKDKKKKTDEAQPLPQRQKKQPTVTLLP-------------
---------------AADMDDFSRQLQNSMSGASADSTQA----------------
>NC_009019_Bat-CoV-HKU4_B04f HKU41_N_28697..29968_1272bp_423aa
------------------MATPAAPRTISF-ADNNDNQPNQQQR------GRGRNP----
---KP--R-PAPNNTVSWYTGLTQ-HGKNPLAFPPGQGVPLNANSTTAQNAGYWRRQDRK
-INTGNG-VKQLAPRWFFYYTGTGPEANLPFRSVKDGIVWVYEEGATDAP-SVFGTRNPA
NDAAIVCQFAPGTLIPKN-FHIE---GTGGNSQSSSRASSN--------------SRNSS
RSSSRGGR----------------------STSNSRGTSPVSHGVGSAESLAALPLLLDL
QKRLADLESGK---SKQ-----------------P-KVVTKKDAA---------------
---AAKNKMRHKRVATKG--FNVTQAFGLRGPGPLQGNFGDMNYNKFGTEDPRWPQMAEL
APSASAFMSMSQFKLTHQSNDDKGD-----PIYFLSYSGAIKLDPKNPNYKKWLELLESN
IDAY-------KTFPKKERKPKTTEDGAVASSSASQMEDVDAKPQRK-------------
---------------PKSRVAGSITMRSGSLPALQDVTFDSEA-------------
>NC_009020_Bat-CoV-HKU5_LMH3f HKU51_N_28878..30161_1284bp_427aa
------------------MATPAPPRAVVF-ANDNETPTNSQRS------GRPRTKP---
---RP--A---PNTTVSWFTGLTQ-HGKQPLAFPPGQGVPLNANSTPAQNAGYWRRQDRK
-INTGNG-TKPLAPRWYFYYTGTGPEANLPFRSVKDGIIWVHENGATDAP-SVFGTRNPA
NDPAIVTQFAPGTTLPKN-FHIE---GTGGNSQSSSRAS----------------SRSSS
RSSSRNGR----------------------SNNSSRNASPAPHGVGDVVGAGTLSVLLDL
QKRLADLEAGK--GNKQ-----------------P-KVITKKDAQ---------------
---AAKQKMRHKRVATKG--YNVVQAFGMRGPGPLQSNFGDMQYNKLGTEDPRWPQIAEL
APSASAFMSTSQFKVTHQSNDENGE-----PVYFLSYSGAIKLDPKNPNYNKWMEILDAN
IDAY-------KSFPKKERKQKPSGDDAATAPATSQMEDVPELPPKQ-------------
-------------QRKKRVVQGSIPQRSAGVPSFEDVVDAIFP------DSEA---
>NC_009021_Bat-CoV-HKU9_BF_005I HKU91_N_26419..27825_1407bp_468aa
------------MSGRNRSRSGTPSPKVTFKQESDGSDSESERRNGNRNGARPKNNNSRG
SAPKPEKPKAAPPQNVSWFAPLVQ-TGKAELRFPRGEGVPVSQGVDSTYEHGYWLRTQRS
-FQKG-GKQVLANPRWYFYYTGTGRFGDLRFGTKNPDIVWVGQEGANINRLGDMGTRNPS
NDGAIPVQLAGG--IPKG-FYAE-GRGSRGNSRSSSRNS----------------SRASS
RGNSRAS---------------------------SRGASPGRPAANPSTEPWMA-YLVQK
LERLESQVSGTKPATKN-----------------P-VQVTKNEAA---------------
---ANAKKLRHKRTAHKG--SGVTVNYGRRGPGDLEGNFGDREMIKLGTDDPRFAAAAQM
APNVSSFLFMSHLST---RDEDDAL--------WLHYKGAIKLPKDDPNYEQWTKILAEN
LNAY-------KDFPPTEPKKDKKKKEETAQDTV--IFEDASTGTDQTVVKVWVKDQDAQ
TDDEWLGGDETVYEDEDDRPKTQRRHKKRGSTASRVTIADPTN----AGAERS---
>NC_001451_IBV_Beaudette_N_25873..27102_1230bp_409aa
------------------------MASGKA-AGKTDAPAPVIKL------GGP-------
---KP--PKVGSSGNASWFQAIKAKKLNTPPPKFEGSGVPDNENIKPSQQHGYWRRQAR-
-FKPGKGGRKPVPDAWYFYYTGTGPAADLNWGDTQDGIVWVAAKGADTKSRSNQGTRDPD
KFDQYPLRFSDG--GPDGNFRWDFIPLNRGRSGRSTAASSAAA------------SRAPS
REGSRGR----------------------------RSDSGD--------------DLIAR
AAKIIQ-------DQQK-----------------KGSRITKAKAD---------------
---EMAHRRYCKRTIPPN--YRVDQVFGPRTKGK-EGNFGDDKMNEEGIKDGRVTAMLNL
VPSSHACLFGSRVTP---KLQLDGL--------HLRFEFTTVVPCDDPQFDNYVKICDQC
VDGV--GTRPKDDEPKPKSRSSSRPATRGNSPAPRQQRPKKEKKLKK-------------
---------------QDDEADKALTSDEERNNAQLEFYDEPKVINWGDAALGENEL
>AY646283_IBV-partridge_Partridge/GD/S14/2003_N_25756..26985_1230bp_409aa
------------------------MASVKA-SGKSDSPAPIIKL------GGP-------
---KP--PKVGSSGNASWFQALKAKKLNAPAPKFEGSGVPDNENLKNSQQHGYWRRQAR-
-YKPSKGGRKPVPDAWYFYYTGTGPAADLNWGDSQDGIVWVAAKGADVKSRSNQGTRDPD
KFDQYPLRFSDG--GPDGNFRWDFIPLNRGRSGRSTAASSAAS------------SRAPS
REGSRGR----------------------------RSGAEE--------------DLIAR
AAKIIQ-------DQQR-----------------KGTRITKQKAD---------------
---EMTHRRFCKRTMPPG--YRVDQVFGPRTKGK-EGNFGDDKMNEEGIKDGRVTAMLNL
TPSPHACLFGSRVTP---KLQPDGL--------HLRFEFTTVVPRDDPQFDNYVKICDDC
VDGV--GTRPKDEVVRPKSRSSSRPATRASSPAPKQQRPKKEKKPKK-------------
---------------QDDEVDKALTSDEERNNAQLEFDDEPKVINWGDSALGENEL
>AY641576_IBV-peafowl_Peafowl/GD/KQ6/2003_N_25870..27099_1230bp_409aa
------------------------MASGKT-TGKTDAPAPVIKL------GGP-------
---KP--PKVGSSGNASWFQALKAKRLNSPPPKFEGSGVPDNENLKLSQQHGYWRRQAR-
-YKPGKGGRKSVPDAWYFYYTGTGPAADLNWGDSQDGIVWVAAKGADTKSRSNQGTRDPD
KFDQYPLRFSDG--GPDGNFRWDFIPLNRGRSGRSTAASSAAS------------SRAPS
REVSRGR----------------------------RSGSED--------------DLIAR
AARIIQ-------DQQK-----------------KGSRITKAKAD---------------
---EMAHRRYCKRTIPPN--YKVDQVFGPRTKGK-EGNFGDDKMNEEGIKDGRVTAMLNL
VPSSHACLFGSRVTP---RLQPDGL--------HLKFEFTTVVPRDDPQFDNYVKICDQC
VDGV--GTRPKDDEPRPKSRSSSRPATRGNSPAPRQQRPKKEKKPKK-------------
---------------QDDEVDKALTSDEERNNAQLEFDDEPKVINWGDSALGENEL
>NC_007447_BoTV-1_Breda 1_N_27775..28278_504bp_167aa
------------------------MNSML-------------------------------
---NP-------------------------------NAVPFQPS----------------
-----------------------------------------------------------P
QVVAIPMQYPSG--FPPG-FRRQRNPGFRPMFNR---------------------RRNNN
GNQNRGR------------------------QNRQRVQNNNRGN----------------
------------------------------------------------------------
--------------------IGNRQNNGQRGSRR------------------QYNQASPN
VPFEQQLLMMANETA-----------------------YAATYPPEMQN-----------
------------VAPTKLVKIAKRAAMQIVSGHA--TVEISNGTEDS-------------
---------------NKRVATFT--------------IKVVMN-------------