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Database: Pfam
Entry: CoV_peptidase
LinkDB: CoV_peptidase
Original site: CoV_peptidase 
#=GF ID   CoV_peptidase
#=GF AC   PF08715.12
#=GF DE   Coronavirus papain-like peptidase
#=GF PI   Viral_protease;
#=GF AU   Mistry J;0000-0003-2479-5322
#=GF AU   Chuguransky S;0000-0002-0520-0736
#=GF SE   pdb_2fe8
#=GF GA   21.40 21.40;
#=GF TC   21.50 24.50;
#=GF NC   20.40 19.40;
#=GF BM   hmmbuild HMM.ann SEED.ann
#=GF SM   hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
#=GF TP   Family
#=GF CL   CL0125
#=GF RN   [1]
#=GF RM   10725411
#=GF RT   Virus-encoded proteinases and proteolytic processing in the
#=GF RT   Nidovirales. 
#=GF RA   Ziebuhr J, Snijder EJ, Gorbalenya AE; 
#=GF RL   J Gen Virol 2000;81:853-879.
#=GF RN   [2]
#=GF RM   16581910
#=GF RT   Severe acute respiratory syndrome coronavirus papain-like
#=GF RT   protease: Structure of a viral deubiquitinating enzyme. 
#=GF RA   Ratia K, Saikatendu KS, Santarsiero BD, Barretto N, Baker SC,
#=GF RA   Stevens RC, Mesecar AD; 
#=GF RL   Proc Natl Acad Sci U S A. 2006;103:5717-5722.
#=GF RN   [3]
#=GF RM   10329692
#=GF RT   A human RNA viral cysteine proteinase that depends upon a unique
#=GF RT   Zn2+-binding finger connecting the two domains of a papain-like
#=GF RT   fold .
#=GF RA   Herold J, Siddell SG, Gorbalenya AE;
#=GF RL   J Biol Chem. 1999;274:14918-14925.
#=GF DR   INTERPRO; IPR013016;
#=GF DR   SO; 0100021; polypeptide_conserved_region;
#=GF CC   This entry contains coronavirus cysteine endopeptidases that
#=GF CC   belong to MEROPS peptidase family C16 and are required for
#=GF CC   proteolytic processing of the replicase polyprotein. All
#=GF CC   coronaviruses encode between one and two accessory cysteine
#=GF CC   proteinases that recognise and process one or two sites in the
#=GF CC   amino-terminal half of the replicase polyprotein during assembly
#=GF CC   of the viral replication complex. HCoV and TGEV encode two
#=GF CC   accessory proteinases, called coronavirus papain-like proteinase
#=GF CC   1 and 2 (PL1-PRO and PL2-PRO). IBV and SARS encodes only one
#=GF CC   called PL-PRO [1]. The structure of this protein has shown it
#=GF CC   adopts a fold similar that of de-ubiquitinating enzymes [2]. The
#=GF CC   peptidase family C16 domain is about 260 amino acids in length.
#=GF CC   This domain is predicted to have an alpha-beta structural
#=GF CC   organisation known as the papain-like fold. It consists of three
#=GF CC   alpha-helices and three strands of antiparallel beta-sheet [3].
#=GF SQ   149
#=GS R1AB_FIPV/1497-1796         AC Q98VG9.2
#=GS R1AB_FIPV/1497-1796         DR PDB; 3ETI E; 200-201;
#=GS R1AB_FIPV/1497-1796         DR PDB; 3ETI H; 200-201;
#=GS R1AB_FIPV/1497-1796         DR PDB; 3JZT H; 200-201;
#=GS R1AB_FIPV/1497-1796         DR PDB; 3JZT G; 200-201;
#=GS R1AB_FIPV/1497-1796         DR PDB; 3JZT C; 200-201;
#=GS R1AB_FIPV/1497-1796         DR PDB; 3JZT A; 200-201;
#=GS R1AB_FIPV/1497-1796         DR PDB; 3ETI A; 200-201;
#=GS R1AB_FIPV/1497-1796         DR PDB; 3ETI D; 200-201;
#=GS R1AB_FIPV/1497-1796         DR PDB; 3ETI C; 200-201;
#=GS A0A096XNJ3_9ALPC/1111-1352  AC A0A096XNJ3.2
#=GS A0A125R5A4_9ALPC/1019-1313  AC A0A125R5A4.1
#=GS H9BR16_9NIDO/1092-1246      AC H9BR16.1
#=GS B1PHJ3_9ALPC/1792-2098      AC B1PHJ3.1
#=GS R1A_BC512/1081-1283         AC P0C6F6.1
#=GS B1PHJ4_9ALPC/1126-1392      AC B1PHJ4.1
#=GS A8JNZ0_9ALPC/1585-1887      AC A8JNZ0.1
#=GS Q06BE1_9BETC/1562-1874      AC Q06BE1.2
#=GS A0A0U2UMS4_9ALPC/1485-1780  AC A0A0U2UMS4.1
#=GS A0A0U1UZC3_9ALPC/916-1182   AC A0A0U1UZC3.1
#=GS R1AB_CVPPU/1486-1781        AC P0C6Y5.1
#=GS A0A0U1UZ65_BCHK4/1533-1858  AC A0A0U1UZ65.1
#=GS R1AB_CVPPU/1025-1286        AC P0C6Y5.1
#=GS K4K1U5_9ALPC/1053-1247      AC K4K1U5.1
#=GS H9BQZ9_9NIDO/1114-1296      AC H9BQZ9.1
#=GS E0ZN59_BCHK9/1398-1716      AC E0ZN59.1
#=GS R1A_SARS/1541-1859          AC P0C6U8.1
#=GS R1A_SARS/1541-1859          DR PDB; 4OVZ B; 65-316;
#=GS R1A_SARS/1541-1859          DR PDB; 4M0W A; 3-319;
#=GS R1A_SARS/1541-1859          DR PDB; 5Y3Q A; 2-315;
#=GS R1A_SARS/1541-1859          DR PDB; 4OW0 B; 57-316;
#=GS R1A_SARS/1541-1859          DR PDB; 4OW0 A; 4-315;
#=GS R1A_SARS/1541-1859          DR PDB; 3MJ5 A; 4-315;
#=GS R1A_SARS/1541-1859          DR PDB; 3E9S A; 2-315;
#=GS R1A_SARS/1541-1859          DR PDB; 5Y3E A; 2-315;
#=GS R1A_SARS/1541-1859          DR PDB; 4OVZ A; 9-313;
#=GS R1A_SARS/1541-1859          DR PDB; 3MJ5 B; 55-316;
#=GS B1PHI7_9ALPC/1167-1393      AC B1PHI7.1
#=GS A0A0U1WHK4_SARS/1541-1859   AC A0A0U1WHK4.1
#=GS A0A125R5A3_9ALPC/1493-1792  AC A0A125R5A3.1
#=GS C0KYZ6_9BETC/1607-1918      AC C0KYZ6.1
#=GS D9J203_9ALPC/1491-1785      AC D9J203.1
#=GS R1AB_SARS2/1564-1882        AC P0DTD1.1
#=GS R1AB_SARS2/1564-1882        DR PDB; 6XG3 A; 2-314;
#=GS R1AB_SARS2/1564-1882        DR PDB; 6W9C A; 3-315;
#=GS R1AB_SARS2/1564-1882        DR PDB; 6W9C C; 4-314;
#=GS R1AB_SARS2/1564-1882        DR PDB; 6WRH A; 1-315;
#=GS R1AB_SARS2/1564-1882        DR PDB; 6WZU A; 1-315;
#=GS R1AB_SARS2/1564-1882        DR PDB; 6W9C B; 3-314;
#=GS Q6UZF5_SARS/1541-1859       AC Q6UZF5.1
#=GS H9BZX5_9BETC/1610-1921      AC H9BZX5.1
#=GS B1PHI7_9ALPC/1848-2154      AC B1PHI7.1
#=GS S5YAF0_9ALPC/1675-1976      AC S5YAF0.1
#=GS A0A0U1WHG4_9ALPC/1595-1897  AC A0A0U1WHG4.1
#=GS F2YDB1_SARS/1541-1859       AC F2YDB1.1
#=GS A0A0U1UZA8_9ALPC/1791-2097  AC A0A0U1UZA8.1
#=GS R1AB_BC512/1081-1283        AC P0C6W0.1
#=GS A0A0U1WHG4_9ALPC/1041-1226  AC A0A0U1WHG4.1
#=GS B2BW31_9GAMC/1139-1440      AC B2BW31.1
#=GS H9TEW9_9ALPC/1036-1286      AC H9TEW9.1
#=GS B1PHJ3_9ALPC/1126-1392      AC B1PHJ3.1
#=GS H9TEW9_9ALPC/1487-1782      AC H9TEW9.1
#=GS D9J202_9ALPC/1491-1785      AC D9J202.1
#=GS A0A0K1RLM9_9ALPC/1482-1777  AC A0A0K1RLM9.1
#=GS A0A0U1UZC3_9ALPC/1508-1812  AC A0A0U1UZC3.1
#=GS R1A_CVPPU/1486-1781         AC P0C6V2.1
#=GS B7U2M9_9BETC/1562-1874      AC B7U2M9.1
#=GS A0A1X9JQL5_9ALPC/1470-1773  AC A0A1X9JQL5.1
#=GS A0A0A7UXR0_9BETC/1615-1924  AC A0A0A7UXR0.1
#=GS A0A0U1WHD1_9ALPC/1743-2044  AC A0A0U1WHD1.1
#=GS B1PHK1_9ALPC/1750-2051      AC B1PHK1.1
#=GS A0A240FW17_9ALPC/1224-1515  AC A0A240FW17.1
#=GS H9BR24_9NIDO/1067-1244      AC H9BR24.1
#=GS H9BR34_9NIDO/995-1294       AC H9BR34.1
#=GS V5TFR4_9GAMC/1140-1443      AC V5TFR4.1
#=GS R1A_BC512/1637-1948         AC P0C6F6.1
#=GS A0A0U1WHD1_9ALPC/1142-1357  AC A0A0U1WHD1.1
#=GS R1A_CVM2/1555-1866          AC P0C6U9.1
#=GS A8JNZ0_9ALPC/1038-1255      AC A8JNZ0.1
#=GS R1AB_CVMJH/1607-1918        AC P0C6Y0.1
#=GS B1PHK0_9ALPC/1142-1340      AC B1PHK0.1
#=GS R1AB_FIPV/1023-1318         AC Q98VG9.2
#=GS A0A096XNJ3_9ALPC/1568-1869  AC A0A096XNJ3.2
#=GS H9TEX0_9ALPC/1487-1782      AC H9TEX0.1
#=GS R1A_CVMJH/1607-1918         AC P0C6V1.1
#=GS B1PHK1_9ALPC/1142-1340      AC B1PHK1.1
#=GS R1AB_SARS/1541-1859         AC P0C6X7.1
#=GS R1AB_SARS/1541-1859         DR PDB; 5TL7 B; 2-316;
#=GS R1AB_SARS/1541-1859         DR PDB; 5TL6 B; 2-316;
#=GS R1AB_SARS/1541-1859         DR PDB; 5E6J A; 4-317;
#=GS R1AB_SARS/1541-1859         DR PDB; 2FE8 A; 2-315;
#=GS R1AB_SARS/1541-1859         DR PDB; 2FE8 C; 2-313;
#=GS R1AB_SARS/1541-1859         DR PDB; 5TL7 D; 4-316;
#=GS R1AB_SARS/1541-1859         DR PDB; 2FE8 B; 2-314;
#=GS R1AB_SARS/1541-1859         DR PDB; 5TL6 D; 5-316;
#=GS R1AB_SARS/1541-1859         DR PDB; 5E6J D; 4-316;
#=GS R1AB_SARS/1541-1859         DR PDB; 4MM3 B; 2-316;
#=GS A3EXE7_BCHK5/1556-1884      AC A3EXE7.1
#=GS R1AB_CVHOC/1562-1874        AC P0C6X6.1
#=GS B8Q8U6_SARS/1541-1859       AC B8Q8U6.1
#=GS B8Q8S5_SARS/1541-1859       AC B8Q8S5.1
#=GS R1AB_BC279/1547-1865        AC P0C6V9.1
#=GS R1AB_BCHK5/1557-1885        AC P0C6W4.1
#=GS A0A0K1RLM9_9ALPC/1001-1282  AC A0A0K1RLM9.1
#=GS R1AB_CVM2/1555-1866         AC P0C6X8.1
#=GS A3EXI9_BCHK9/1420-1736      AC A3EXI9.1
#=GS F2YDB2_SARS/1541-1859       AC F2YDB2.1
#=GS T2B9I2_MERS/1481-1806       AC T2B9I2.1
#=GS R1A_CVHOC/1562-1874         AC P0C6U7.1
#=GS H9TEX0_9ALPC/1036-1286      AC H9TEX0.1
#=GS R1A_CVMA5/1608-1919         AC P0C6V0.1
#=GS U5LR11_9BETC/1550-1873      AC U5LR11.1
#=GS E0XIZ2_9BETC/1531-1849      AC E0XIZ2.1
#=GS R1AB_CVH22/1599-1908        AC P0C6X1.1
#=GS A0A0F6SKM6_9GAMC/1198-1506  AC A0A0F6SKM6.1
#=GS A0A0K1Z0N1_SARS/1541-1859   AC A0A0K1Z0N1.1
#=GS B8Q8S4_SARS/1541-1859       AC B8Q8S4.1
#=GS R1A_CVH22/1599-1908         AC P0C6U2.1
#=GS A0A0P0ILY9_CVH22/1033-1253  AC A0A0P0ILY9.1
#=GS D9J203_9ALPC/1011-1256      AC D9J203.1
#=GS B1PHI6_9ALPC/1168-1393      AC B1PHI6.1
#=GS A0A023YA54_MERS/1581-1907   AC A0A023YA54.1
#=GS Q0PL14_9ALPC/1483-1778      AC Q0PL14.1
#=GS R1AB_BCHK9/1424-1739        AC P0C6W5.1
#=GS R1A_BC279/1547-1865         AC P0C6F5.1
#=GS A3EXC0_BCHK4/1533-1858      AC A3EXC0.1
#=GS A0A125R5A3_9ALPC/1019-1313  AC A0A125R5A3.1
#=GS A0A0U1WHG1_9ALPC/1450-1752  AC A0A0U1WHG1.1
#=GS T2B9U0_MERS/1481-1806       AC T2B9U0.1
#=GS R1AB_BC512/1637-1948        AC P0C6W0.1
#=GS A0A0K2RVJ3_9BETC/1565-1878  AC A0A0K2RVJ3.1
#=GS B1PHK0_9ALPC/1750-2051      AC B1PHK0.1
#=GS R1A_BCHK4/1523-1848         AC P0C6T4.1
#=GS S5Z1D1_9ALPC/1674-1976      AC S5Z1D1.1
#=GS E0ZN51_BCHK9/1419-1736      AC E0ZN51.1
#=GS R1A_BCHK9/1424-1739         AC P0C6T6.1
#=GS R1A_BCHK5/1557-1885         AC P0C6T5.1
#=GS A0A088DIE1_9BETC/1680-2003  AC A0A088DIE1.1
#=GS A0A140ESF0_9NIDO/1103-1286  AC A0A140ESF0.1
#=GS Q0PL14_9ALPC/1013-1283      AC Q0PL14.1
#=GS A0A0U1UZ20_9ALPC/1750-2051  AC A0A0U1UZ20.1
#=GS R1AB_CVMA5/1608-1919        AC P0C6X9.1
#=GS R1AB_CVMA5/1608-1919        DR PDB; 4YPT A; 1608-1910;
#=GS R1AB_CVMA5/1608-1919        DR PDB; 5WFI A; 1609-1909;
#=GS R1AB_CVMA5/1608-1919        DR PDB; 5WFI B; 1609-1911;
#=GS H9AA60_9BETC/1577-1890      AC H9AA60.1
#=GS B2BW32_9GAMC/1139-1441      AC B2BW32.1
#=GS A3EXA2_BCHK4/1523-1848      AC A3EXA2.1
#=GS K4K1U5_9ALPC/1636-1939      AC K4K1U5.1
#=GS S5YAF0_9ALPC/1106-1299      AC S5YAF0.1
#=GS R1A_CVH22/994-1247          AC P0C6U2.1
#=GS R1A_SARS2/1564-1882         AC P0DTC1.1
#=GS Q0ZJB1_CVHK1/1647-1959      AC Q0ZJB1.1
#=GS A0A0P0ILY9_CVH22/1599-1905  AC A0A0P0ILY9.1
#=GS R1AB_IBVB/1174-1482         AC P0C6Y1.1
#=GS R1AB_IBVB/1174-1482         DR PDB; 3EJF A; 170-171;
#=GS R1AB_IBVB/1174-1482         DR PDB; 4X2Z A; 4-304;
#=GS R1AB_IBVB/1174-1482         DR PDB; 3EKE A; 170-172;
#=GS R1AB_IBVB/1174-1482         DR PDB; 5BZ0 A; 57-304;
#=GS B1PHJ4_9ALPC/1792-2098      AC B1PHJ4.1
#=GS A0A0P0LKV0_CVH22/1033-1253  AC A0A0P0LKV0.1
#=GS R1AB_CVH22/994-1247         AC P0C6X1.1
#=GS B6VDX7_THCOV/1079-1257      AC B6VDX7.1
#=GS A0A0K1YZY7_SARS/1541-1859   AC A0A0K1YZY7.1
#=GS A0A125R5A4_9ALPC/1493-1792  AC A0A125R5A4.1
#=GS R9QTB2_SARS/1533-1851       AC R9QTB2.1
#=GS Q9J3E9_9BETC/1605-1916      AC Q9J3E9.1
#=GS B8Q8U7_SARS/1541-1859       AC B8Q8U7.1
#=GS A8JNZ1_9ALPC/1585-1887      AC A8JNZ1.1
#=GS A8JNZ1_9ALPC/1038-1255      AC A8JNZ1.1
#=GS A0A059VJE6_9ALPC/1629-1934  AC A0A059VJE6.1
#=GS A0A1X9JQL5_9ALPC/1072-1289  AC A0A1X9JQL5.1
#=GS H9BR07_9NIDO/1095-1274      AC H9BR07.1
#=GS D9J202_9ALPC/1012-1256      AC D9J202.1
#=GS R1A_IBVB/1174-1482          AC P0C6V3.1
#=GS R1A_CVPPU/1025-1286         AC P0C6V2.1
#=GS R1A_CVPPU/1025-1286         DR PDB; 3MP2 A; 10-220;
#=GS A0A0U1UZ20_9ALPC/1141-1360  AC A0A0U1UZ20.1
#=GS U5KNA9_9BETC/1550-1873      AC U5KNA9.1
#=GS A0A0K2RW65_9BETC/1565-1878  AC A0A0K2RW65.1
#=GS A0A0U2UMS4_9ALPC/1037-1285  AC A0A0U2UMS4.1
#=GS R1AB_BCHK4/1523-1848        AC P0C6W3.1
#=GS A0A0U1UZA8_9ALPC/1125-1392  AC A0A0U1UZA8.1
#=GS A0A0U1WHG0_SARS/1536-1854   AC A0A0U1WHG0.1
#=GS H9BZX6_9BETC/1610-1921      AC H9BZX6.1
#=GS A0A0P0LKV0_CVH22/1599-1905  AC A0A0P0LKV0.1
#=GS A0A0U1WHG1_9ALPC/909-1107   AC A0A0U1WHG1.1
#=GS S5Z1D1_9ALPC/1084-1219      AC S5Z1D1.1
#=GS B1PHI6_9ALPC/1848-2154      AC B1PHI6.1
#=GS A0A0F6WGL5_9GAMC/1198-1506  AC A0A0F6WGL5.1
#=GS A0A1B3Q5W8_9BETC/1466-1787  AC A0A1B3Q5W8.1
#=GS A0A059VJE6_9ALPC/1018-1285  AC A0A059VJE6.1
R1AB_FIPV/1497-1796                    .....................................................................ng---TIPIKVTEDTVNQKRVSV.ALDKTYGEQLkG.TVVIKDKDVTNQLPSVSDVGEKVVK.A.LDVDWNA....Y.YGFPNAA..AFS....A....S.SH.DA.Y.E--..--..--....--..-...FDV...VT..H..N..NFIVHKQTDNNCWVNAICLALQRL.K.PTWKFPGVKSLWDAFLTRKTAGFVHMLYH..ISGLT.KGQPGDAELTLHKLVDLMSSDSAVTVTHTTACDKCA-K.VETFTGP---VV.--AAPL--LVCGTDEICVHGVHVNVKVTSIRGTVAITS....L--I...G.....P...V..V.GD...VI..DATG.Y.IC..Y..TG.L.N...S.RGH.YT..yYDNRN..G..L..M.V...DAD....KA.Y..HFE..KNLLQVTTAIAS--.-----------nfvantpkkei............................................................................................................
#=GR R1AB_FIPV/1497-1796         SS    .....................................................................H----XXXXXXXXXXXXXXXXXX.XXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXX.X.XXXXXXX....X.XXXXXXX..XXX....X....X.XX.XX.X.X--..--..--....--..-...XXX...XX..X..X..XXXXXXXXXXXXXXXXXXXXXXXX.X.XXXXXXXXXXXXXXXXXXXXXXXXXXXXX..XXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX-X.XXXXXXX---XX.--XXXX--XXXXXXXXXXXXXXXXXXXXXXXXXXXXXX....X--X...X.....X...X..X.XX...XX..XXXX.X.XX..X..XX.X.X...X.XXX.XX..XXXXXX..X..X..X.X...XXX....XX.X..XXX..XXXXXXXXXXXX--.-----------XXXXXXXXXXX............................................................................................................
A0A096XNJ3_9ALPC/1111-1352             ................................................nirirdlvlvcaskklsfvlady---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.DA.DD.F.NAH..VA..KV....HT..K...FPVtaiDD..R..G..GYKHLRLRDNNCWANAVFVGLQLC.D.YYTKD---DMVWQCALRGANSRFLEKLYN..ANKTF.YGSTADAAQALERLL---DGDACMTVKL-ALSCFCGDS.TVELRS--SVLK.FRPING-FFDYGY--CNVCETTIQALILHVEGKGFFCY....T-AT...K.....D...S..K.ML...FP..GCVG.E.IV..Y..TG.P.D...Q.GGH.YY...-IKYG..-..-..-.-...---....--.-..---..--------------.-----------ggyhdgtgsrrsadarsqvavynvdg.............................................................................................
A0A125R5A4_9ALPC/1019-1313             ............tadaedvsetvsvvavedsveqvslveensvltpavnpdeqlssveenaevsakndpwa---------------------.----------.-.-------------------------.-.-------....-.-------..--A....A....V.DE.QE.A.EQP..KP..SL....-T..P...FKT...TN..L..N..GKIILKQQDNNCWINACCYQLQAF.D.F-FN----HDLWDGFKKDDVMPFVEFCYA..ALTLK.QGDSGDAEYLLETML----NDYSTAKVTLSAKCGCGVK.EIVL---ERTVF.KLTPLRNEFKYGV--CGDCKQINMCKFASVEGSGVFVHd..rIEKQ...T.....P...V..S.QF...IV..PPTM.H.AV..Y..TG.T.T...Q.NGH.YM..iDDCVQ..D..Y..C.V...DG-....--.-..---..--------------.-----------mgikprkhkfytstlflnanvmtadsktmvelhvp....................................................................................
H9BR16_9NIDO/1092-1246                 ......................................nlfdgtdyvseavagvtylavsdkvatsakeld---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....L.TM.SQ.Y.YKY..LD..YC....SL..Q...WKV...KK..-..T..NFTHLVVVRNNCFITAVLDFLQNT.H.VTFRQ-PLDGLYKQYLNGNVEQLVAWCYA..ITNQT.PGDTGDAVAVLSALLKYNT-------------------.------------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------dtiiatteccgskvdldgmiftt................................................................................................
B1PHJ3_9ALPC/1792-2098                 ....................................................................dtk----TTIKVSLDGRNVVDVDV.AADQTIGEQL.N.ACTTDNVIISDSVVTD-VIDTIVNV.A.PEVDWDS....F.YGFPHAA..EFH....M....L.DH.SA.F.A-F..DN..DV....--..-...---...--..V..D..GKRALVGTDNNCWINAVCLQLQFA.E.VDFTSEGLKDMWNEFLVGNVAKFCHWIYW..LVRAN.KGDAGDAENALNMLNKYVKAHGTVTLTR-ETAEGCCVN.EH---RINSFVV.NASVLRSGCNDGY---CKHGNAYIARVSKVDGVSVIVN....V-DR...P.....Sv.mS..D.NL...LL..SGTS.Y.TA..F..SG.P.M...D.SGH.YR..vFNPAT..S..K..M.F...DGA....NC.I..GGD..LCNLAVTAVVIKNK.V----------fkiqtadnntpvk..........................................................................................................
R1A_BC512/1081-1283                    ...............................................................dvfafsya---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...-S..Y..G..GLKVLNQSSNNCWVSSALVQLQLT.G.L-LDS----DEMQLFNAGRVSPMVKRCYE..SQRAI.FGSLGDVSACLESLLKDRDGMSITCTID----CGCG--.-PGVRVYENAIF.RFTPLKTAFPMGR--CLICSKTLMHTITQMKGTGIFCR....DATA...L.....D...V..D.TL...VV..KPLC.A.AV..Y..VG.A.Q...D.GGH.YLt.nMYDAN..M..A..V.D..gHGR....HP.I..KFN..--------------.-----------tintlcyk...............................................................................................................
B1PHJ4_9ALPC/1126-1392                 ..............................................................vedvitade---------------------.----------.-.--------VVDVETTAQVEEVTVVS.A.IEEDIIK....P.EEVIDVS.sDIE....A....V.NH.A-.L.S-F..MK..PTetkfVD..P...FKF...DYydH..E..GIRVLRQNNNNCWVASTLVQLQLS.C.LL-DD---DDTMALFKAGSVSPLVRKCYD..AVGAI.VGSLGDASHCLEVLLKDL----HTMFITCDATCGCGSS.NYELTG--SVFR.FMP-TRDSFSYGA--CGVCGKTLKLKIRTMTGTGFFCQ....DP-K...P....fN...T..A.RA...IV..KPVC.A.SI..Y..QG.S.T...T.SGH.YK...TNVFG..K..R..F.-...---....--.-..---..--------------.-----------cvdgsgvssisnghintillk..................................................................................................
A8JNZ0_9ALPC/1585-1887                 .....................................................................kp--KDVKVKVTADGRNVNDVVV.TTAETFDAQL.G.PSANGVESLVGVVPTPMDSGRVVNT.A.PDVNWSK....H.FGFSDAA..AFA....V....L.DH.SK.F.A-F..DS..EV....--..-...---...--..V..D..GKRALADSDNNCWVNATCLALQFL.K.PTFKYVGWEDLWNKLRSGDVAGFVHLLYY..IEGVD.KGAKGDVESTLSKLDKYIVSSGSVTVERSTLCDRC---.NSTVKTVTGAIA.EASVILNGHADGH---CPHNFEWRVQVVGVKGDIILLH....SGSL...-.....-...L..N.GP...YV..YGDA.Y.VA..F..SG.N.I...D.NGH.YT..vFDNKL..S..K..M.Y...DGI....KC.V..KTT..LDTLVASSVVIRNG.SYAV-------ktehvp.................................................................................................................
Q06BE1_9BETC/1562-1874                 ....................................................................ldk----VDILLTVDGVNFTNRFV.PVGESFGKSL.G.NVFCDGVNVTKHKCDINYKGKVFFQ.F.---DNLS....S.EDLKAVR..SSF....N....F.DQ.KE.L.LAY..YN..MLv..nCS..K...WQV...VF..N..G..KYFTFKQANNNCFVNVSCLMLQSL.N.LKFKIVQWQEAWLEFRSGRPARFVSLVLA..KGGFK.FGDPADSRDFLRVVF--SQVDLTGAICDFEIACKCGVK.QEQRTGVDAVMH.FGTLSREDLEIGYTVDCSCGKKLIHCV-RFDVPFLICS....N---...T.....P...A..S.VK...LP..KGVG.S.AN.iF..KG.D.-...K.VGH.YV...HVKCE..Q..SyqL.Y...DAS....NV.K..KVT..DVTGNLSDCLYLKN.LK---------qtfksvlt...............................................................................................................
A0A0U2UMS4_9ALPC/1485-1780             ....................................................................acs----IPINVTEDNVNHERVSV.SFDKTYGEQLnG.TVVIKDKDVTNQLPSAFDVGQKVVK.A.IDIDWQA....Y.YGFRDAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..S..NFIVHKQTDNNCWINAICLALQRL.K.PQWKFPGVRGLWNEFLERKTQGFVHMLYH..ISGVK.KGEPGDAELMLHKLGDLMDNECEIIVTHTTACDKCAKV.EKFVGPVVAA--.--PLAIH----GIDETCVHGVSVNVKVTQVSGTVAITS....L-IG...P.....I...I..-.GE...VL..EATG.Y.IC..Y..SG.S.N...M.SGH.YT...YYDNR..N..G..L.V..vDAE....KA.Y..HFN..RDLLQVTTVIA---.-----------snfvvkkp...............................................................................................................
A0A0U1UZC3_9ALPC/916-1182              .................ttcnavdtgvavhkalsrtvvvqtasdpqkeveealaymkpevvkpvveksmfd---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.--Y..PS..TV....--..-...---...--..F..N..GIRVLKQVANNCWLTCATYQLQLA.D.C-YEA----DDYSLFKVGSVKHFVKRCYE..SVGAV.KGSLGDTTQLLERLCKDVK---TLKVTC-NVACDCG--.-TSVKVLEGCVF.HFMPVADAFPYGV--CSNCKQVAMHTIMGINGTGFFCQ....E---...P.....A...HfdV.KK...AL..CSIA.A.TA.tY..VG.K.Q...N.GGH.YR..tNDFVH..G..K..A.V...DGS....GI.T..PLN..-YKAPVTNCLVVNA.NYVAPTPPV--kv.....................................................................................................................
R1AB_CVPPU/1486-1781                   ....................................................................scs----IPVNVTEDNVNHERVSV.SFDKTYGEQLkG.TVVIKDKDVTNQLPSAFDVGQKVIK.A.IDIDWQA....H.YGFRDAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..S..NFIVHKQTDNNCWINAICLALQRL.K.PQWKFPGVRGLWNEFLERKTQGFVHMLYH..ISGVK.KGEPGDAELMLHKLGDLMDNDCEIIVTHTTACDKCAKV.EKFVGPVVAA--.--PLAIH----GTDETCVHGVSVNVKVTQIKGTVAITS....L-IG...P.....I...I..-.GE...VL..EATG.Y.IC..Y..SG.S.N...R.NGH.YT...YYDNR..N..G..L.V..vDAE....KA.Y..HFN..RDLLQVTTAI----.-----------asnfvvkkp..............................................................................................................
A0A0U1UZ65_BCHK4/1533-1858             ...................................................................qqvn----IEVLVTIDGVNFRTVIL.NDTTTFRKQL.G.ATFYKGVDISDALPTVKMGGESLFV.A.DNLSESE....K.GVLK--E..YYG....T....S.DV.TF.L.QRYysLQ..PL....VQ..Q...WKF...VV..H..D..GVKSLKLSNYNCYINATIMMIDMLhD.IKFVVPALQNAYLRYKGGDPYDFLALIMA..YGDCT.FDNPDDESKLLHTLLAKAELTVSAKMIWREWCTVCGIR.DIEYTGMRACVY.AGVNSMEELQSVFNETCVCGSVKHRQLVEHYAPWLLVS....GLNE..vK.....V...S..T.ST...DP..VYRA.F.NV..F..QGvE.T...S.VGH.YV...HVRVK..D..G..L.FykyDSG....SL.T..KTS..DMKCKMTSVWYPTV.RYTA-------dcnvvvy................................................................................................................
R1AB_CVPPU/1025-1286                   ....................................................sqeevetvevaditsteed---------------------.----------.-.-------------------------.-.--VDIVE....V.SAKD-DP..WAA....A....V.DV.QE.A.EQF..NP..SL....-P..P...FKT...TN..L..N..GKIILKQGDNNCWINACCYQLQAF.D.F-FN----NEAWEKFKKGDVMDFVNLCYA..ATTLA.RGHSGDAEYLLELMLN--DYSTAKIVLA--AKCGCGEK.EIVLE--RAVFK.LTPLK-ESFNYGV--CGDCMQVNTCRFLSVEGSGVFVHd.ilSKQT...P.....E...A..M.F-...VV..KPVM.H.AV..Y..TG.T.T...Q.NGH.YM...VD---..-..-..-.-...---....--.-..---..--------------.-----------diehgycvdgmgikplkkrcytstlfinanvmtraekp.................................................................................
K4K1U5_9ALPC/1053-1247                 ................................................................kvnpfnf---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...-EF...YD..Y..K..GIRVLKQKDNNCWVSSTLVQLQLL.D.CY--S---DHAFDLFKAGSVAPIVQKCYE..LTRNI.VGSAGDVSFALEQLLKDLH----TMFITFDVVCGCNNG.ERRQSELSGCVFrFLPTSE-PFV--YGGCPSCDKPLMHTITSMQGTGVFCQ....D---...P.....K...A..V.DVttlLV..QPMC.A.SA..F..IG.N.WfnnS.LGH.Y-...-----..-..-..-.-...---....--.-..---..--------------.-----------ktnvydkgfcvdgn.........................................................................................................
H9BQZ9_9NIDO/1114-1296                 .............nrtvvrtttdydqvttkaltpqgvleanlfdgedfvqepkpgqiylevtdevqnqake---------------------.----------.-.-------------------------.-.-------....-.-------..--L....D....L.NL.QQ.Y.CVY..LK..TC....HH..K...WSV...SR..T..N..GVMHLXQKDNNCFVSAGINLFQNT.A.YQLRP-AIDALYREYLNGNPNRFVAWIYA..STNRQ.VGEMGCPQQVISLLVSNSDA------------------.------------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------afsattaccntyfnhtgvisva.................................................................................................
E0ZN59_BCHK9/1398-1716                 ....................................................................eal----IKVLTTVDGINYNTVLV.SGTQSYKAQI.G.KVFCDGKDWSDNKPMPKDEGAHLYK.Q.DNFS---....L.EELAAMR..EYY....G....V.DD.PNiI.ARA..MS..IRk..tVQ..T...WPY...TV..L..D..GRVLLAQRDSNCYLNVAISLLQDI.D.VSFSTPWVSRAYDALKGGNPLPMAEVLIA..LGKAI.PGESDDAHMVLSAVLNHGTV-VARRVMQ-TVCEHCGVN.QMVFTGTDACTF.YGSVVLDDLYAPVSVVCPCGRPAIRYVSEQKSPWLLMS....C--T...P.....T...Q..V.PL...DT..NGNW.K.TAivF..RG.P.V...T.AGH.YM...YAVNG..TliS..V.Y...DAN....TR.K..RTS..DLKLPATDILYGPT.NFTSDSKVV--ty.....................................................................................................................
R1A_SARS/1541-1859                     .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
#=GR R1A_SARS/1541-1859          SS    .......................................................................SXXEEEEEEESSSSSXEEEEE.ETTSXHHHHH.S.SEEETTEEGTTSXXXGGGTTXEEEE.-.--SHHHH....H.HHHH---..HHS....-....-.-T.TH.H.HHH..HH..HHH..HHT..T...S--...-E..E..T..TEE---S-TTTHHHHHHHHHHTTS.-.--BSSHHHHHHHHHHHTT--HHHHHHHHH..HTT--.TTS-B-HHHHHHHHHTTBS-TT-EEEEE-EEETTTEEE.EEEEETHHHHEE.ES-S-HHHHHH-EEEEETTSSEEEEEEEEEESSEEEEE....E---...E.....E...E..E.EE...EE..TTS-.S.EEEEE..EE.C.S...S.SEE.EE...EEEES..S..S..E.EE.EETT....EE.E..EES..EEEEEEEEEEEE-S.EEE----XXXX.......................................................................................................................
B1PHI7_9ALPC/1167-1393                 ..................................eeevkpeevidvssdlddvnkalsfmmpqetkfvdpf---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..K...FDY...FD..H..E..GIRVLRQNNNNCWVATTLVQLQLS.G.LLDD----DDSMALFKAGSVSPLVRKCYN..ATGAI.MGSLGDSSQCLEVLLKDL----HSMFITCDSTCGCGSG.TYELSG--SVFR.FMP-TRDSFDYGA--CTVCGKVLKLKIKTLVGTGIFCQ....D-PK...P....fN...T..A.RA...IV..KPIC.A.SI..Y..QG.S.T...T.SGH.YK...TNVYG..K..-..-.-...---....--.-..---..--------------.-----------rfcvdgsgvssi...........................................................................................................
A0A0U1WHK4_SARS/1541-1859              .......................................................................EVKTIKVFTTVDNTNLHTHLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQI.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSILCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
A0A125R5A3_9ALPC/1493-1792             .....................................................................ng---TIPVKVTEDTVNHKRVSV.ALDKTYGEQLkG.TVVIKDKDVTNQLPSVSDAGEKVVK.A.LDVDWNA....H.YGFINAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..N..NFIVHKQTDNNCWVNAICLALQRL.K.PTWKFPGVKSLWNDFLVRKTAGFVHMLYH..ISGLR.RGQPGDAELTLHKLGELMLSDGTVTITHTTACDKCA-K.TEIFTGP-----.VVAAPLLV--YGTDETCVHGVSVNVKVTSVRGTVAITS....L--I...G.....P...V..V.GD...VI..DATG.Y.IC..Y..TG.L.N...S.RGH.YT..yYDNRN..G..L..M.V...DAE....KA.Y..HFE..KNLLQVTTAIASN-.FCTETV-----pknq...................................................................................................................
C0KYZ6_9BETC/1607-1918                 ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIHKGKVFFQ.Y.SGLSAAD....L.AAVKDA-..--F....G....F.DE.PQ.L.LQY..YS..ML...gMC..K...WPV...VV..C..G..NYFAFKQSNNNCYINVACLMLQHL.S.LKFPKWQWQEAWNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSTDFIRVVLREADLSGATCDLE--FICKCGVK.QEQRKGVDAVMH.FGTLDKSGLVKGYNIACTCGDKLV-HCTQFNVPFLICS....N--T...P.....E...G..K.KL...PD..DVVA.A.NI..F..TG.G.-...S.VGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.S..KVS..EAKGNFTDCLYLKN.LKQT-------fssvlt.................................................................................................................
D9J203_9ALPC/1491-1785                 .................................................................fktpvt-------VVVKDCNKVTKTTV.DASATIGVQL.DsNVVLNEQDCSKCVPDLSMSQATITK.V.ADVDWCS....H.YGFENAA..VFS....A....S.DH.SD.Y.K-F..ES..AI....--..-...---...--..V..N..DKIVFKQSDNNCWVNSLCLLLQDY.K.PSWRFPGMEDLWSKFVSGNTEAFVHCLYF..ITGAT.KGQPNDVELALHKLEPLLCSSGSVILDEFSGCDYCYNR.S----TVNGPIV.AAPLQTLGDKA----VCRHGVRVTTRVHKIQGSIILTS....I--N...G.....S...V..T.DC...-L..RGDG.Y.VC..F..TG.S.K...D.KGH.YT...YYS--..G..V..M.Y...DAD....KT.Y..PFK..VTDLSVTTVLISNG.YT---------vpvvqs.................................................................................................................
R1AB_SARS2/1564-1882                   .......................................................................EVRTIKVFTTVDNINLHTQVV.DMSMTYGQQF.G.PTYLDGADVTKIKPHNSHEGKTFYV.L.PNDDTLR....V.EAFE---..YYH....T....T.DP.SF.L.GRY..MS..ALn..hTK..K...WKY...PQ..V..N..GLTSIKWADNNCYLATALLTLQQI.E.LKFNPPALQDAYYRARAGEAANFCALILA..YCNKT.VGELGDVRETMSYLFQHANLDSCKRVLN-VVCKTCGQQ.QTTLKGVEAVMY.MGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMS....A---...P.....P...A..Q.YE...LK..HGTF.T.CAseY..TG.N.Y...Q.CGH.YK...HITSK..E..T..L.Yc.iDGA....LL.T..KSS..EYKGPITDVFYKEN.SYTTTIKPVTY.......................................................................................................................
#=GR R1AB_SARS2/1564-1882        SS    .......................................................................XX-EEEEEEESSSSS-EEEEE.ETTS-HHHHH.S.SEEETTEE-TTS---CCCTT-EEEE.-.--SHHHH....H.HHHH---..HHS....-....-.-T.TH.H.HHH..HH..HHH..HHT..T...S--...-E..E..T..TEE---S-TTTHHHHHHHHHHTTS.-.--BSSHHHHHHHHHHHCT--HHHHHHHHH..HTT--.TTS---HHHHHHHHHHTB--TT-EEEEE-EEETTTEEE.EEEEEGGGGTEE.ES-S-HHHHHH-EEEE-TTSSEEEEEEEEEESSEEEEE....E---...E.....E...E..E.EE...EE..TTS-.S.EEEEE..EE.S.S...S.CEE.EE...EEEES..S..S..E.EE.EETT....EE.E..EES..SEEEEEEEEEEE-S.EEE---XXXXX.......................................................................................................................
Q6UZF5_SARS/1541-1859                  .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
H9BZX5_9BETC/1610-1921                 ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIHKGKVFFQ.Y.SGLSEAD....L.VAVKDA-..--F....G....F.DE.SQ.L.LKY..YN..ML...gMC..K...WPV...VV..C..G..NYFAFKQANNNCYVNAACLMLQHL.S.LKFPKWQWQEAWNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSTDFMRVVLREADLSGATCNLE--FVCKCGVK.QEQRKGIDAVMH.FGTLDKGDLVKGYNIACTCGSKLV-HCTQFNVPFLICS....N--T...P.....E...G..R.KL...PD..DVVA.A.NI..F..TG.G.-...N.LGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.S..KVS..EAKGNFTDCLYLKN.LKQT-------fssvlt.................................................................................................................
B1PHI7_9ALPC/1848-2154                 ....................................................................dtk----TTVKVSLDGRNVVDVDV.AADKTIGEQL.N.ACTTDNVIISNSVVT-DVIDTVVNV.A.PEADWDT....F.YGFPNAA..EFH....M....L.DH.SA.Y.A-F..DS..DV....--..-...---...--..V..D..GKRALVGTDNNCWVNAVCLQLQFA.E.VDFTSEGLKDMWNEFLVGNVAKFCHWLYW..LVRAT.KGDAGDAENALNMLAKYVKAHGTITITR-ETDDGCCAN.EHR---ISSFVV.NASVLRSGCTDGY---CKHGNAYTACVSKVDGVSVIVN....V-DR...P.....Sv.mS..D.NL...LL..TGTS.Y.TA..F..SG.P.M...D.SGH.YR..vYNPVT..S..K..M.F...DGA....NC.V..GGD..LCNLAVTAVVVKNKvFKMQTS-----nsntpvk................................................................................................................
S5YAF0_9ALPC/1675-1976                 .....................................................................gq----FRVEVTQDQRTYSVKSL.DASKTMGEQL.G.TCSVDNTNVSDQRPTSDIS--KVTV.A.PAVDWDV....H.YGFVGAA..SFH....I....L.NH.EA.F.E-Y..PS..SV....--..-...---...--..Q..N..GKRVLKTSDNNCWVNAVCLQLQFA.N.AKFVGTGLQTLWDEYLVGNVAGFVHWLYW..LAGVQ.KGDPGDAEDTLNLISKFLQSQGHVVVDRTTVDSCCSSQ.RTLVTP----VV.NGSILRMGVDDGA---CKHGSTFINKVVSINGTVILVN....V--G...P.....PissA..P.TS...FI..QGLS.Y.TS..F..NN.T.V...GgVGH.YT..vYDSTQ..H..G..F.Y...DGD....VF.V..RGE..LAMQPVTALVARHS.HY---------vvkdpvks...............................................................................................................
A0A0U1WHG4_9ALPC/1595-1897             ......................................................................d-VQEVRIKVSYNDRDVQDVVV.KGDKVIDQQI.G.PCSTNNFDLTGVKPDDAIN-SVVNV.A.PEVDWIS....H.YGFPRAD..VWH....T....L.DH.SA.Y.D-Y..ES..KE....--..-...---...--..Q..D..GIRVLKFSDNNCWVNATCIQLQIA.K.TTFKNEGIQAMWDEFLVGKVAKFVHWLYW..YQNSS.KGDPGDVEYTLNAISRYMANKSTVVISR-VATTECCND.TKT---IHTPVV.NVSLLRSGVEDGV---CQHGNKYYSRLVSVKGTVIVTS....T-GK...P.....N...VypR.NA...LI..TGDS.Y.TL..Y..SG.D.V...K.DGH.YT..vFSVKG..D..K..I.F...DGE....NV.S.sNND..LSLYPVTSVVVSN-.-----------kviefekpa..............................................................................................................
F2YDB1_SARS/1541-1859                  .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
A0A0U1UZA8_9ALPC/1791-2097             ....................................................................dtk----TTIKVSLDGRNVVDVDV.AADQTIGEQL.N.ACTIDNVIISDSVVTD-VIDTIVNV.A.PEVDWDS....F.YGFPHAA..EFH....M....L.DH.SA.Y.A-F..DS..DV....--..-...---...--..V..D..GKRAIVGTDNNCWVNAVCLQLQFA.E.VDFTSEGLKDMWNEFLVGNVAKFCHWIYW..LVRAN.KGDAGDAENALNMLNKYVKAHGTVTLTR-ETAEGCCVN.EH---RINSFVV.NASVLRSGCNDGY---CKHGNAYIARVSKVDGVSVIVN....V-DR...P.....Sv.mS..D.NL...LL..SGTS.Y.TA..F..SG.P.M...D.SGH.YR..vFNPAT..S..K..M.F...DGA....NC.V..GGD..LCNLAVTAVVIKNK.V----------fkiqtadnntpvk..........................................................................................................
R1AB_BC512/1081-1283                   ...............................................................dvfafsya---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...-S..Y..G..GLKVLNQSSNNCWVSSALVQLQLT.G.L-LDS----DEMQLFNAGRVSPMVKRCYE..SQRAI.FGSLGDVSACLESLLKDRDGMSITCTID----CGCG--.-PGVRVYENAIF.RFTPLKTAFPMGR--CLICSKTLMHTITQMKGTGIFCR....DATA...L.....D...V..D.TL...VV..KPLC.A.AV..Y..VG.A.Q...D.GGH.YLt.nMYDAN..M..A..V.D..gHGR....HP.I..KFN..--------------.-----------tintlcyk...............................................................................................................
A0A0U1WHG4_9ALPC/1041-1226             ...................................................aalsymtptapkptenpfaf---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...-EF...YD..L..N..GVKVLRQCDNNCWVASALVQLQLL.D.IYN-----DYAYDFFKIGRVAPMVKRCYE..CTGNI.RGSAGDTSHCLEKILSGLH---TMQL-RFSVKCKCGTY.AEEMSG------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------cvfrfmptakafpyggcascgktrmytittmkgtgvfcqeptplnisellveplcasvfksghykt.....................................................
B2BW31_9GAMC/1139-1440                 .................................................................vsevvy-------YSTFDGVNYKTHKFsNLGKLVKDVI.GdKVYVDGVCVDNKPLFEIQPGSTFLR.LyPISD-AD....K.QH---IK..NYY....E....L.SS.KQ.Y.GVF..AA..VY....AR..E...HPI...IE..S..G..GLRYLKQKNNNCFVSTALVMLQHL.K.LEFKG-IVKELWSNFLAGDARGIVAYTYAllYPTVK.YGDMGDAEEVVLKYLNKAKLCA---QLTLNIKCKCGER.NHTFSGVDAVYC.IADVSTRHKALTSRIVCACD-NVKSSIVYADLPFVFVH....R--N...V.....T...T..K.IK...LE..ED-F.V.CAniF.kHG.S.H...Y.CGT.--...-----..-..-..-.-...---....--.-..---..--------------.-----------namysydsmsskagkpilessfsaivfegffk.......................................................................................
H9TEW9_9ALPC/1036-1286                 .................................vtsteedveivevsakddpwaaavdvqeaeqikpslpp---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...FKT...TN..L..N..GKIILKQQDNNCWINACCYQLQAF.D.F-FN----NEAWEKFKKGDVMDFVNLCYA..ATTLE.RGHSGDAEYLLELMLN--DYSTAKIVLA--ARCGCGEK.EIVL---ERTVF.KLSPLRNDFKYGV--CGDCMQINNAGVVECLKDLVYLS....MIEWknaR.....P...V..S.DF...IV..KPIM.H.AV..Y..IG.S.T...Q.SGH.YM...ID---..-..-..-.-...---....--.-..---..--------------.-----------dcehgycvdgmgikpckgklytstlfinanvmtrvekp.................................................................................
B1PHJ3_9ALPC/1126-1392                 ..............................................................vedvitade---------------------.----------.-.--------VVDVETTAQVEEVTVVS.A.IEEDIIK....P.EEVIDVS.sDIE....A....V.NH.A-.L.S-F..MK..PTetkfVD..P...FKF...DYydH..E..GIRVLRQNNNNCWVASTLVQLQLS.C.LL-DD---DDTMALFKAGSVSPLVRKCYD..AVGAI.VGSLGDASHCLEVLLKDL----HTMFITCDATCGCGSS.NYELTG--SVFR.FMP-TRDSFSYGA--CGVCGKTLKLKIRTMTGTGFFCQ....DP-K...P....fN...T..A.RA...IV..KPVC.A.SI..Y..QG.S.T...T.SGH.YK...TNVFG..K..R..F.-...---....--.-..---..--------------.-----------cvdgsgvssisnghintillk..................................................................................................
H9TEW9_9ALPC/1487-1782                 .....................................................................gs----IPVKVTEDNVNHERVSV.SFDKTYGEQLkG.TVVIKDKDVTNQLPSAFDVGQKVVK.A.IDLDWQA....H.YGFHDAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..S..NFIVHKQTDNNCWINAICLALQRL.K.PQWKFPGVRGLWNEFLERKTQGFVHMLYH..ISGVK.KGEPGDAELTLHKLGDLMDNDCEIIVTHTTACDKCA-K.VEKFTG---PVV.AAPLAIH----GTDETCVHGVSVNVKVTQIKGTVAITS....L-SG...P.....I...I..G.E-...VL..EATG.Y.IC..Y..RG.S.S...K.NGH.YT..yYDNRN..G..L..M.I...DAE....KA.Y..HFN..KDLLQVTTAI----.-----------asnfvvkkpq.............................................................................................................
D9J202_9ALPC/1491-1785                 .................................................................fktpvt-------VVVKDCNKVTKTTV.DASATIGVQL.DsNVVLNEQDCSKCVPDLSMSQATITK.V.ADVDWCS....H.YGFENAA..VFS....A....S.DH.SD.Y.K-F..ES..AI....--..-...---...--..V..N..DKIVFKQSDNNCWVNSLCLLLQDY.K.PSWRFPGMEDLWSKFVSGNTEAFVHCLYF..ITGAT.KGQPNDVELALHKLEPLLCSSGSVILDEFSGCDYCYNR.S----TVNGPIV.AAPLQTLGDKA----VCRHGVRVTTRVHKIQGSIILTS....I--N...G.....S...V..T.DC...-L..RGDG.Y.VC..F..TG.S.K...D.KGH.YT...YYS--..G..V..M.Y...DAD....KT.Y..PFK..VTDLSVTTVLISNG.YT---------vpvvqs.................................................................................................................
A0A0K1RLM9_9ALPC/1482-1777             ....................................................................acs----IPVNVTEDNVNHERVSV.SFDKTYGEQLkG.TVVIKEKDVTNQLPSAFDVGQKVVK.A.IDIDWQA....H.YGFRDAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..S..NFIVHKQTDNNCWINATCLALQRL.K.PQWKFPGVRGLWNEFLERKTQGFVHMLYH..ISGVK.KGEPGDAELMLHKLGDLMDNDCEILVTHNTACDKCAKV.EKFVGPVIAAP-.---LAI----HGTDETCVHGVSVNVKVTQIKGTVVITS....L-IG...P.....V...I..-.GE...VL..EATG.Y.IC..Y..SG.S.K...R.NGH.YT...YYDNR..N..G..L.V..vDAE....KA.Y..HFN..RDLLQVTTAI----.-----------asnfvvkkp..............................................................................................................
A0A0U1UZC3_9ALPC/1508-1812             ....................................................................sla---QYKVQTTEDGVNVNTVIV.SNAKTYGEQL.G.SVTVADSDISATKPAVLDETKMLVV.A.PAVDWVS....H.YGFSDAA..AFA....T....F.DH.TP.F.A-F..DS..DM....--..-...---...--..V..M..GKRALAQTDNNCWINAACLALQQL.K.PKFKFPGLEAAWNKYVTGDCGEFVHFLYH..ITRSR.KGDLGDTENLLNLLDKYIVASGTVVLERHVDCPTCNS-.--TERTINASVV.SASLSRDGSDDGV--CCAHGVDYVLRVKHVKGDVIITT....CEQP...K.....C...Y..KsSE...IL..MGEA.Y.VA..F..TG.P.I...S.GGH.YL..vYDRAT..G..Q..V.F...DGN....KC.L..PYD..FDTLTISAVVVKGG.YV---------csmpkk.................................................................................................................
R1A_CVPPU/1486-1781                    ....................................................................scs----IPVNVTEDNVNHERVSV.SFDKTYGEQLkG.TVVIKDKDVTNQLPSAFDVGQKVIK.A.IDIDWQA....H.YGFRDAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..S..NFIVHKQTDNNCWINAICLALQRL.K.PQWKFPGVRGLWNEFLERKTQGFVHMLYH..ISGVK.KGEPGDAELMLHKLGDLMDNDCEIIVTHTTACDKCAKV.EKFVGPVVAA--.--PLAIH----GTDETCVHGVSVNVKVTQIKGTVAITS....L-IG...P.....I...I..-.GE...VL..EATG.Y.IC..Y..SG.S.N...R.NGH.YT...YYDNR..N..G..L.V..vDAE....KA.Y..HFN..RDLLQVTTAI----.-----------asnfvvkkp..............................................................................................................
B7U2M9_9BETC/1562-1874                 ....................................................................ldk----VDILLTVDGVNFTNRFV.PVGESFGKSL.G.NVFCDGVNVTKHKCDINYKGKVFFQ.F.---DNLS....S.EDLKAVR..SSF....N....F.DQ.KE.L.LAY..YN..MLv..nCF..K...WQV...VF..N..G..KYFTFKQANNNCFVNVSCLMLQSL.N.LKFKIVQWQEAWLEFRSGRPARFVSLVLA..KGGFK.FGDPADSRDFLRVVF--SQVDLTGAICDFEIACKCGVK.QEQRTGVDAVMH.FGTLSREDLEIGYTVDCSCGKKLIHCV-RFDVPFLICS....N---...T.....P...A..S.VK...LP..KGVG.S.AN.iF..KG.D.-...K.VGH.YV...HVKCE..Q..SyqL.Y...DAS....NV.K..KVT..DVTGNFSDCLYLKN.L----------kqtfksvlt..............................................................................................................
A0A1X9JQL5_9ALPC/1470-1773             ....................................................................eel----VTVLVTEDSVNYTSTTV.STNSTFGEQL.G.ICAVASKDVTNAQPTLADEGCAVVL.P.PSIDYAS....Y.YGFD-AA..SFI....A....V.GH.GD.Y.N-F..EI..VV....--..-...---...--..D..D..GIVALSQDRNNCWLNVVCLSLQML.K.PHFKFEGLRKLWDEFCTGAVAGFCHFVYF..VSNIS.LGSKADAEVVLHKLNNFIESDTTVTHMTCTQCVDCKDD.TCTVTG---AVV.NSVLSRSAVTAGN---CKHGYCKNVIVKSVSGDCILTS....N--K...P.....C...S..A.DQ...YV..SNVG.R.IL..Y..TG.D.E...T.NGH.YT..fYDCTR..G..R..L.Y...DGS....TY.KvqDVA..SVSASVSSLVVKIH.SYAPVTQP---ktv....................................................................................................................
A0A0A7UXR0_9BETC/1615-1924             .....................................................................kn---VVEVLLTVDGFNFKTKSV.VCGEAFSKQV.G.NVFCENVDVTKHIVSKEYAGKVLYQ.F.ENLSEAE....L.ESVK---..QSF....G....F.DQ.KQ.L.LAY..YS..YR...sCC..R...WEV...VV..H..R..KWFCFKQADNNCYCNAACLMLQNL.N.LTFKLQQWQEAWLEFRAGRPLRFVALVLA..KGAFV.YGQPADARDFMRVALSQADLSSAS--CEYEFICKCGVK.VEKRDGIDAVMF.YGTCDKQALEKGTTTDCSCGPK-TVHVLSMNVPFFIGS....Q---...A.....P...A..V.GA...LP..NGCA.A.AN.lY..KG.G.-...A.VGH.YT...HVKNG..K..Q..L.Tc.fDAH....NV.K..KCT..TLVDGVTDCLYTN-.-----------vpkqtfesc..............................................................................................................
A0A0U1WHD1_9ALPC/1743-2044             ..................................................................ttssi------VKVSEDGRTVKDVVV.STTSDAGVQL.G.PCAVDGTSLTASVVTD-VVSSVVAV.A.PNVDWDS....H.YGFKDAG..TFH....V....L.DH.NA.Y.A-Y..DS..DF....--..-...---...--..V..D..GKRALASSDNNCWVNATCLQLQFA.G.VEFLSKGVTAMWNEFLTGDVARFVHWLYW..LNGAN.KGDLGDVETTLNLVAKYAKPKGCVTIEK-TTTDGCCSS.E---KRVNSLVV.NASVLRQGVGDGY---CQHGSEYIIRVARVEGTAIVVN....VGDP..sV.....K...A..P.NL...LI..SGTA.Y.TA..F..SG.P.V...D.AGH.YR..vYCAAT..S..K..V.F...DGK....NV.V..GGD..LCNLAVTSVVVVNK.S----------fkadlgva...............................................................................................................
B1PHK1_9ALPC/1750-2051                 ..................................................................ttpsv------VKVTEDGRTVKDVVV.STTTTAGDQL.G.PCAVEGASLTTSVVTDVVN-SVVAV.A.PNVDWDS....H.YGFKDAG..NFH....V....L.DH.SA.Y.A-Y..DS..DF....--..-...---...--..V..D..GKRALAGSDNNCWVNATCLQLQFA.G.VEFLSKGVTAMWNEFLTGDVARFVHWLYW..LNGAS.KGDLGDVETTLNLVAKHAKPKGCVTIEKTTVDGCCVSE.----KRVNSLVV.NASVLRQGVGDGY---CQHGNEYIIRVSRVEGTAIIVN....VGDP..sV.....K...A..P.NL...LI..SGTA.Y.TA..F..SG.P.I...D.AGH.YR..vYCSAT..S..K..V.F...DGK....SI.V..GGD..LCNLAVTSVVVVNK.FFK--------aevcna.................................................................................................................
A0A240FW17_9ALPC/1224-1515             ....................nltvdirndvnievpveseqnihvsdiedskeskivnlngrdsyrvdsnye---------------------.----------.-.-------------------------.E.EDADWET....F.YGFSNAK..VFS....E....I.DY.SR.Y.K--..--..--....--..-...TKF...KI..K..H..GYVALQNVANNCWVNSVGLMLQRA.D.VVFNSEGLNVLWKRYLEGKNGGFIAFLYF..IMNKE.IGDLGDAEQVLLVLNKYIKCESKVIVSTEYECDSCENK.VVTYEGLIAP--.-VSLIERNFQ------CDHGKKVTTKVLKLSGDMIFVD....VNGF...N.....P...F..E.SN...GF..NLQS.A.NV..I..VG.G.E...E.LCH.YW..yWDKQ-..-..-..-.-...---....--.-..---..--------------.-----------knivftgkgwsdksvkdkiaysafvkndefkkkn.....................................................................................
H9BR24_9NIDO/1067-1244                 ...................................................dsnhadvwsnlnksivkvtl---------------------.----D----F.D.QVTTKHMSLDEIKQARLFDGEKFITqA.GDSIYLQ....VtSATEQAA..SNL....G....L.TL.AQ.Y.FRM..LQ..YT....SI..K...WTV...VK..K..N..GIMVLKQSHNNCYVASAIAFMQMV.N.YKPSG-AVADLFNSFLNGNPSEFVAYCYA..ASGQV.PGQMGDAMSVLDVLFKD---------------------.------------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------fvvrgttacc.............................................................................................................
H9BR34_9NIDO/995-1294                  .......................................................tqddrhlqawdainrv-------------------VV.QTTKDFD-QV.T.---TQHLTPQGVLDANLYDGHDFVL.E.PKPNHV-....Y.LAVDDVI..QTA....AndldL.TL.SQ.Y.CMY..LK..NC....QV..R...WTT...KR..V..K..GLVHLQQQSNNCFVSSALNFYQNT.H.YKFRP-VIDALYQEYLNGNPSRLVAWIYA..SISQS.IGELGCPQQVLNLLV----LNSNSKFSG---VTHCCKR.YFTHDGVVANVE.----EFDLLQSKV--YCVQCECWTTFDAEQTEGVITVG....RTSG...P.....A...P..T.HA...IM..FGNA.H.CW..Y..T-.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------dgrksvngydiqadvvaiyhkfnkvpeqtamlaqvfetsnkyevlkvdpv.....................................................................
V5TFR4_9GAMC/1140-1443                 sevvyystfdgvnykthkfsnlgklvkdvigdkvyvdgvcvdnkplfeiqpgstflrlypiseadkqhird---------------------.----------.-.-------------------------.-.-------....-.-------..-IN....E....L.SL.KQ.Y.GVF..AA..VY....AR..E...HPI...IE..S..G..GLRYLKQKNNNCFVSTALVMLQHL.K.LEFKG-IVKELWSNFLAGDARGIVAYTYAllYPTVK.YGDMGDAEEVVLKYLNKANLCAQLTL---NIKCKCGER.NHTFNGVDAVYC.IADVSTRHKALTSRIVCAC-NNVKSSIVYADLPFVFVH....R--N...V.....T...T..K.IK...LE.eDFVC.A.NV..F.kHG.S.H...Y.CGT.--...-----..-..-..-.-...---....--.-..---..--------------.-----------namysydsmsskagkpilessfsaivfegffkant....................................................................................
R1A_BC512/1637-1948                    .......................................................................EAKPVQVVVTQDQRSFHTVEL.STSQTYGQQL.G.DCVVEDKKVTNLKPVS--KDKVVSV.V.PNVDWDK....H.YGFVDAG..IFH....T....L.DH.TM.F.V-F..DN..NV....--..-...---...--..V..N..GKRVLRTSDNNCWINAVCLQLQFA.N.AKFKPKGLQQLWESYCTGDVAMFVHWLYW..ITGVE.KGEPSDAENTLNIISRFLKPQGSVEMLR-ATSTTCDGT.CSTKRVVSTPVV.NASVLKVGLDDGN---CVHGLPLVDRVVSVNGTVIITN....VGDT...PgkpvvA...T..E.NL...LL..DGVS.Y.TV..F..QD.S.T..tG.VGH.YT..vFDKEA..K..L..M.F...DGD....VL.K..PCD..LNVSPVTSVVVCNN.KKIVVQDPV--kr.....................................................................................................................
A0A0U1WHD1_9ALPC/1142-1357             ........................................................lsfivdeprafvdpf---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..K...FEY...YD..H..A..GVRVLKQDANNCWVASTIVQLQLY.-.-GFES----DAMSLFKAGSVSPMVRNCYE..AVSAI.RGSLGDVSQCLERLL----CDSHTMFMTFDVKCKCGVS.MAEMSG--AVFR.-FMPTRDAFNYGA--CPTCRSVMVYKIKSMQGSGFFCQ....DPKP...F.....N...T..A.RS...LV..KPVS.A.SV..Y..SG.S.T...D.GGH.YK...-----..-..-..-.-...---....--.-..---..--------------.-----------tniynarvcvdgfgvtsivtgnvnvvflrdv........................................................................................
R1A_CVM2/1555-1866                     ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIHKGKVFFQ.Y.SGLSAAD....L.VAVTD--..-AF....G....F.DE.PQ.L.LKY..YN..ML...gMC..K...WPV...VV..C..G..NYFAFKQSNNNCYINVACLMLQHL.S.LKFHKWQWQEAWNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSTDFMRVVLREADLSGATC--DFEFVCKCGVK.QEQRKGVDAVMH.FGTLDKGDLAKGYTIACTCGNKLV-HCTQLNVPFLICS....N--K...P.....E...G..K.KL...PD..DVVA.A.NI..F..TG.G.-...S.LGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.S..KVS..EAKGNFTDCLYLKN.LKQT-------fssklt.................................................................................................................
A8JNZ0_9ALPC/1038-1255                 .............................................................raispfgfdt---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...NE..I..N..GRRVLYQSNNNCWVNAACYQLQVL.-.-GFDSPA----MELYRVGGTHNLVKQCYE..ATGAF.LGSLGDVAHCLEVLLKDAK--TAK-V-TVEVTCDCSSN.FEELSGA--FFR.FLP---LRSKFEYGSCFACHGTRYYRVCGIVGSAIFSQ....T-LK...P.....L...D..F.ND...LI..CDVAsA.SV..F..LG.D.-...D.CGH.YL..iNDYDK..R..L..C.V...DGM....GV.Y..KIR..HNTID-TIVVKDAD.IKPSTVAP---fte....................................................................................................................
R1AB_CVMJH/1607-1918                   ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIHKGKVFFQ.Y.SGLSAAD....L.AAVKDA-..--F....G....F.DE.PQ.L.LQY..YS..ML...gMC..K...WPV...VV..C..G..NYFAFKQSNNNCYINVACLMLQHL.S.LKFPKWQWRRPGNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSTDFIRVELREADLSGATCDLE--FICKCGVK.QEQRKGVDAVMH.FGTLDKSGLVKGYNIACTCGDKLV-HCTQFNVPFLICS....N--T...P.....E...G..K.KL...PD..DVVA.A.NI..F..TG.G.-...S.VGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.S..KVS..EAKGNFTDCLYLKN.LKQT-------fssvlt.................................................................................................................
B1PHK0_9ALPC/1142-1340                 .........................................................alsfivdepsafvd---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..P...FKF...EY..Y..DhaGVRVLKQEVNNCWVASTLVQLQLY.-.-GFDS----DAMSLFKAGSVSPMVRRCYE..AVGAI.RGSLGDVSQCLEKLL----SDSHTMFMTFDVKCDCGAS.VAEMSG---AVF.RFMPTRDSFNYGA--CPTCRSVMVYKIKSMQGTGFFCQ....DPKP...F.....N...T..A.RS...LV..RPVS.A.SV..Y..SG.R.T...D.GGH.YK...-----..-..-..-.-...---....--.-..---..--------------.-----------tniydarvcvdgf..........................................................................................................
R1AB_FIPV/1023-1318                    .........................................edvssvegetvsvvdvedfveqvslveenn---------------------.----------.-.-----------VLTPAVNPDEQLSS.V.EKKDEVS....A.KND---P..WAA....A....V.DE.QE.A.EQP..KP..SL....-T..P...FKT...TN..L..N..GKIILKQQDNNCWINACCYQLQAF.D.F-FN----HDLWDGFKKDDVMPFVDFCYA..ALTLK.QGDSGDAEYLLETML----NDYSTAKVTLSAKCGCGVK.EIVL---ERTVF.KLTPLRNEFKYGV--CGDCKQINMCKFASVEGSGVFVHd..rIEKQ...T.....P...V..S.QF...IV..TPTM.H.AV..Y..TG.T.T...Q.SGH.YM..iEDCIH..D..Y..C.V...DGMgikpRK.H..KFY..TSTLFLNANVMTAK.SKT--------mveppvpv...............................................................................................................
A0A096XNJ3_9ALPC/1568-1869             ....................................................................eei----VTVLVTEDTVNYTTTSV.STSATFGEQL.G.VCAIADTDVTTQKPTLENEGCAVVV.P.PAIDYES....Y.YGFD-AA..SFC....A....V.SH.ND.Y.N-F..GC..VI....--..-...---...--..D..D..GVVALTQDRNNCWLNAVCLSLQML.K.PQFKFDGIKKLWDEFCTGDVAGFCHFVYF..TSNIS.LGSKADAEVVLRKLSGFIES--DNSVVH-MVCTQCVDC.KEDLVRTDGAVI.VSSLSRGNVVSGK---CEHGYCRNVIVQRITGDCILTS....S--K...P.....C...V..S.DQ...YI..TNVG.R.IL..Y..NG.D.E...S.NGH.YT..fYDCFR..G..R..L.Y...DGS....VF.T..LQGvaSVKAPVSSLVVKK-.-----------qavvqkrppi.............................................................................................................
H9TEX0_9ALPC/1487-1782                 .....................................................................gs----IPVKVTEDNVNHERVSV.SFDKTYGEQLkG.TVVIKDKDVTNQLPSAFDVGQKVVK.A.IDLDWQA....H.YGFHDAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..S..NFIVHKQTDNNCWINAICLALQRL.K.PQWKFPGVRGLWNEFLERKTQGFVHMLYH..ISGVK.KGEPGDAELTLHKLGDLMDNDCEIIVTHTTACDKCA-K.VEKFTG---PVV.AAPLAIH----GTDETCVHGVSVNVKVTQIKGTVAITS....L-SG...P.....I...I..G.E-...VL..EATG.Y.IC..Y..RG.S.S...K.NGH.YT..yYDNRN..G..L..M.I...DAE....KA.Y..HFN..KDLLQVTTAI----.-----------asnfvvkkpq.............................................................................................................
R1A_CVMJH/1607-1918                    ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIHKGKVFFQ.Y.SGLSAAD....L.AAVKDA-..--F....G....F.DE.PQ.L.LQY..YS..ML...gMC..K...WPV...VV..C..G..NYFAFKQSNNNCYINVACLMLQHL.S.LKFPKWQWRRPGNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSTDFIRVELREADLSGATCDLE--FICKCGVK.QEQRKGVDAVMH.FGTLDKSGLVKGYNIACTCGDKLV-HCTQFNVPFLICS....N--T...P.....E...G..K.KL...PD..DVVA.A.NI..F..TG.G.-...S.VGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.S..KVS..EAKGNFTDCLYLKN.LKQT-------fssvlt.................................................................................................................
B1PHK1_9ALPC/1142-1340                 .........................................................alsfivdepsafvd---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..P...FKF...EY..Y..DhaGVRVLKQEVNNCWVASTLVQLQLY.-.-GFDS----DAMSLFKAGSVSPMVRRCYE..AVGAI.RGSLGDVSQCLEKLL----SDSHTMFMTFDVKCDCGAS.VAEMSG---AVF.RFMPTRDSFNYGA--CPTCRSVMVYKIKSMQGTGFFCQ....DPKP...F.....N...T..A.RS...LV..RPVS.A.SV..Y..SG.R.T...D.GGH.YK...-----..-..-..-.-...---....--.-..---..--------------.-----------tniydarvcvdgf..........................................................................................................
R1AB_SARS/1541-1859                    .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
#=GR R1AB_SARS/1541-1859         SS    .......................................................................--SEEEEEEESSSSSEEEEEE.ETTS-HHHHH.S.SEEETTEEGTTS---GGGTT-EEEE.-.--SHHHH....H.HHHH---..HHS....-....-.-T.TH.H.HHH..HH..HHH..HHT..T...S--...-E..E..T..TEE---S-TTTHHHHHHHHHHTTS.-.--BSSHHHHHHHHHHHHT--HHHHHHHHH..HTT--.TTS-B-HHHHHHHHHTTBS-TT-EEEEE-EEETTTEEE.EEEEETHHHHEE.ES-S-HHHHHH-EEEE-TTSSEEEEEEEEEESSEEEEE....E---...E.....E...E..E.EE...EE..TTS-.S.EEEEE..EE.E.S...S.SEE.EE...EEEES..S..S..E.EE.EETT....EE.E..EES..EEEEEEEEEEEE-S.EEE----XXXX.......................................................................................................................
A3EXE7_BCHK5/1556-1884                 .....................................................................qq--KNVDVLVTIDGVNFRTAVL.NNTTTYRVQL.G.SVFYKGSDISDTIPTEKMSGEAVYL.A.DNLS---....-.EAEKAVLseVYG....T....A.DA.AF.L.HRY..YS..LLa..lVK..R...WKY...TV..H..D..GVKSLKLNSNNCYVNVTMLMLDML.KeIKFIVPALQAAYLKHKGGDSTEFIALIMA..YGDCT.YGEPDDASRLLHTILSKAELTTQAKMVWRQWCNVCGVQ.DTTTTGLKACIY.VGMNSLDELHATHEECCQCGDVRKRQLVEHNAPWLLLSglneAKVM..tP.....T...S..Q.SA...GP..DYTA.F.NV..F..QGvE.T...S.VGH.YL...HVRVK..D..N..LlYk.yDSG....SL.S..KTS..DMKCKMTDVYYPKQ.RY---------sadcnvvv...............................................................................................................
R1AB_CVHOC/1562-1874                   ....................................................................ldk----VDILLTVDGVNFTNRFV.PVGESFGKSL.G.NVFCDGVNVTKHKCDINYKGKVFFQ.F.---DNLS....S.EDLKAVR..SSF....N....F.DQ.KE.L.LAY..YN..MLv..nCF..K...WQV...VV..N..G..KYFTFKQANNNCFVNVSCLMLQSL.H.LTFKIVQWQEAWLEFRSGRPARFVALVLA..KGGFK.FGDPADSRDFLRVVF--SQVDLTGAICDFEIACKCGVK.QEQRTGLDAVMH.FGTLSREDLEIGYTVDCSCGKKLIHCV-RFDVPFLICS....N---...T.....P...A..S.VK...LP..KGVG.S.AN.iF..IG.D.-...N.VGH.YV...HVKCE..Q..SyqL.Y...DAS....NV.K..KVT..DVTGKLSDCLYLKN.LK---------qtfksvlt...............................................................................................................
B8Q8U6_SARS/1541-1859                  .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
B8Q8S5_SARS/1541-1859                  .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
R1AB_BC279/1547-1865                   .......................................................................EVRTIKVFTTVDNTNLHTQIV.DMSMTYGQQF.G.PTYLDGADVTKIKPHAKHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..I..G..GLTSIKWADNNCYLSSVLLALQQI.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNRT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKTCGQK.STTLTGVEAVMY.MGTLSYEELKTGVTIPCICGRDATQYLVQQESSFVMMS....A---...P.....P...S..E.YT...LQ..QGAF.L.CAneY..TG.S.Y...Q.CGH.YT...HVTVK..E..T..L.Yr.iDGA....YL.T..KMS..EYKGPVTDVFYKEI.SYTTTIKPVSY.......................................................................................................................
R1AB_BCHK5/1557-1885                   .....................................................................qq--KNVDVLVTIDGVNFRTVVL.NNTTTYRVQL.G.SVFYKGSDISDTIPTEKMSGEAVYL.A.DNLS---....-.EAEKAVLseVYG....T....A.DT.AF.L.HRY..YS..LLa..lVK..K...WKY...TV..H..D..GVKSLKLNSNNCYVNVTMLMLDML.KeIKFIVPALQAAYLKHKGGDSTEFIALIMA..YGDCT.YGEPDDASRLLHTILSKAELTTQAKMVWRQWCNVCGVQ.DTTTTGLKACIY.VGMNSLDELHATHEECCQCGDVRKRQLVEHNAPWLLLSglneAKVM..tP.....T...S..Q.SA...GP..DYTA.F.NV..F..QGvE.T...S.VGH.YL...HVRVK..D..N..LlYk.yDSG....SL.S..KTS..DMKCKMTDVYYPKQ.RY---------sadcnvvv...............................................................................................................
A0A0K1RLM9_9ALPC/1001-1282             .................................dsaeenpgveveasesaegissqeevetvevvdltske---------------------.----------.-.-------------------------.-.EDVDIVE....V.SAKEDPW..-AA....A....V.DV.QE.A.EQF..NP..SL....-P..P...FKT...TN..L..N..GKIILKQSDNNCWINACCYQLQVF.D.F-FN----NEAWEKFKKGDVMDFVNLCYA..VTTLA.RGHSGDADYLLELMLN--DYSTAKIVL--AAKCGCGEK.EIVL---ERTVF.KLTPLKESFNYGV--CGGCMQVNTCRFLSVEGSGVFVHd.ilSKQT...P.....E...-..S.MF...IV..KPVM.H.AV..Y..TG.T.T...Q.NGH.YM...V----..-..-..-.-...---....--.-..---..--------------.-----------ddiehgycvdgvgikplkkrcytstlfinanvmtrvek.................................................................................
R1AB_CVM2/1555-1866                    ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIHKGKVFFQ.Y.SGLSAAD....L.VAVTD--..-AF....G....F.DE.PQ.L.LKY..YN..ML...gMC..K...WPV...VV..C..G..NYFAFKQSNNNCYINVACLMLQHL.S.LKFHKWQWQEAWNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSTDFMRVVLREADLSGATC--DFEFVCKCGVK.QEQRKGVDAVMH.FGTLDKGDLAKGYTIACTCGNKLV-HCTQLNVPFLICS....N--K...P.....E...G..K.KL...PD..DVVA.A.NI..F..TG.G.-...S.LGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.S..KVS..EAKGNFTDCLYLKN.LKQT-------fssklt.................................................................................................................
A3EXI9_BCHK9/1420-1736                 .....................................................................al----IKVLTTVDGINYNTVLV.SREQSYKAQI.G.KVFCDGRDYSDRRPANADEGIHLFK.-.--QDNFS....A.EELKSMR..EYY....G....VeDP.NI.I.ARA..MS..IRk..tVQ..T...WPF...TV..L..D..GRVLLAQRDSNCYLNVAISLLQDV.E.VTFTTPWVARAHAALKGGNPLPMAEVLIA..LSKAR.PGECDDAHMILSTVLNHGVVEARRVM-Q-TVCESCGIS.QLVFRGTDACTF.YGSVLLDDLYEPVSVVCPCGRPAIRYVSEQKSPWLLMS....H--S...P.....S...Q..V.PL...DT..SGSW.K.SAivF..RG.P.V...T.AGH.YM...YAVNG..TliS..V.Y...DAN....TR.K..RTS..DLKLPATDILYGPT.NFTS-------sskvet.................................................................................................................
F2YDB2_SARS/1541-1859                  .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
T2B9I2_MERS/1481-1806                  ....................................................................qql---TIEVLVTVDGVNFRTVVL.NNKNTYRSQL.G.CVFFNGADISDTIPDEKQNGHSLYL.A.DNLTADE....T.KALK--E..LYG....P....V.DP.TF.L.HRF..YSlkAA....VH..K...WKM...VV..C..D..KVRSLKLSDNNCYLNAVIMTLDLL.KdIKFVIPALQHAFMKHKGGDSTDFIALIMA..YGNCT.FGSPDDASRLLHTVLAKAELCCSARMVWREWCNVCGIK.DVVLQGLKACCY.VGVQTVEDLRARMTYVCQCGGERHRQIVEHTTPWLLLS....GTPNe.kL.....V...T..T.ST...AP..DFVA.F.NV..F..QGiE.T...A.VGH.YV...HARLK..G..G..L.IlkfDSG....TV.S..KTS..DWKCKVTDVLFPGQ.-----------kyssdcnvvr.............................................................................................................
R1A_CVHOC/1562-1874                    ....................................................................ldk----VDILLTVDGVNFTNRFV.PVGESFGKSL.G.NVFCDGVNVTKHKCDINYKGKVFFQ.F.---DNLS....S.EDLKAVR..SSF....N....F.DQ.KE.L.LAY..YN..MLv..nCF..K...WQV...VV..N..G..KYFTFKQANNNCFVNVSCLMLQSL.H.LTFKIVQWQEAWLEFRSGRPARFVALVLA..KGGFK.FGDPADSRDFLRVVF--SQVDLTGAICDFEIACKCGVK.QEQRTGLDAVMH.FGTLSREDLEIGYTVDCSCGKKLIHCV-RFDVPFLICS....N---...T.....P...A..S.VK...LP..KGVG.S.AN.iF..IG.D.-...N.VGH.YV...HVKCE..Q..SyqL.Y...DAS....NV.K..KVT..DVTGKLSDCLYLKN.LK---------qtfksvlt...............................................................................................................
H9TEX0_9ALPC/1036-1286                 .................................vtsteedveivevsakddpwaaavdvqeaeqikpslpp---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...FKT...TN..L..N..GKIILKQQDNNCWINACCYQLQAF.D.F-FN----NEAWEKFKKGDVMDFVNLCYA..ATTLE.RGHSGDAEYLLELMLN--DYSTAKIVLA--ARCGCGEK.EIVL---ERTVF.KLSPLRNDFKYGV--CGDCMQINNAGVVECLKDLVYLS....MIEWknaR.....P...V..S.DF...IV..KPIM.H.AV..Y..IG.S.T...Q.SGH.YM...ID---..-..-..-.-...---....--.-..---..--------------.-----------dcehgycvdgmgikpckgklytstlfinanvmtrvekp.................................................................................
R1A_CVMA5/1608-1919                    ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIYKGKVFFQ.Y.SDLSEAD....L.VAVKDA-..--F....G....F.DE.PQ.L.LKY..YT..ML...gMC..K...WPV...VV..C..G..NYFAFKQSNNNCYINVACLMLQHL.S.LKFPKWQWQEAWNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSIDFMRVVLREADLSGATCNLE--FVCKCGVK.QEQRKGVDAVMH.FGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLICS....N--T...P.....E...G..R.KL...PD..DVVA.A.NI..F..TG.G.-...S.VGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.N..KVS..EAKGNFTDCLYLKN.LKQT-------fssvlt.................................................................................................................
U5LR11_9BETC/1550-1873                 ...................................................................qqln----VEVLATVDGVNFRTVIL.NNKNTFRSQL.G.TVFLDGVDVSDTIPSVDKNGASVYI.A.DNFSKEE....L.AAVK---..EMY....G....VeDP.TF.L.YKY..YS..IR....AKvvK...WKM...AM..C..E..DAPSLCLNSNNCYLNAAVMMLDCLrD.IKFNIPALQAAYMKFKGGDFGDFISLLMA..YGNCT.YGQPDDASMLLHTALSKAELLVSARMVWREWCDHCGVK.DVVITGIKACVY.VGVQSLDELRECNHHICQCGGVRFRQLVECVTPWLLLS....G---...P.....P...N..E.EL...VAnpDFVA.F.NV..F..IG.HeA...G.VGH.FV...HARVK..K..G..LlYk.yDSG....TL.T..KAS..DWKCKVTDKLYPGQ.KYT--------aeceivvy...............................................................................................................
E0XIZ2_9BETC/1531-1849                 .......................................................................EVKTIKVFTTVDNINLHTQVI.DMSMTYGQQL.G.PTYMDGADLTKVKPHASHENKTFFV.L.PSDDTLR....I.EAFE---..YYH....T....V.DE.SF.F.GRY..MS..ALn..hTK..R...WKY...PQ..V..G..GLTSIKWADNNCYLSSVLLSLQQI.D.IKFNAPALQDAYYRARAGDAANFCALVLA..YSKKT.VGELGDVRETMAHLLQHANLESAKRVLN-VVCKHCGQK.STTLSGVEAVMY.MGTLSYDHLKRGVKIPCVCGREATQYLVKQESTFVMMS....A---...P.....P...A..E.YT...LQ..TGEF.L.CAneY..TG.N.Y...Q.CGH.YT...HITNR..E..T..I.Yk.iDGA....LL.T..KIT..EYKGPVADVFYKET.SYSTDIKPVSY.......................................................................................................................
R1AB_CVH22/1599-1908                   .......................................................................EAKVITIKVTEDGVNVHDVTV.TTDKSFEQQV.G.VIADKDKDLSGAVPSDLNTSELLTK.A.IDVDWVE....F.YGFKDAV..TFA....T....V.DH.SA.F.A-Y..ES..AV....--..-...---...--..V..N..GIRVLKTSDNNCWVNAVCIALQYS.K.PHFISQGLDAAWNKFVLGDVEIFVAFVYY..VARLM.KGDKGDAEDTLTKLSKYLANEAQVQLEHYSSCVECDAKfKNSVASINSAIV.CASVKRDGVQVGY---CVHGIKYYSRVRSVRGRAIIVS....VEQL..eP.....C...A..Q.SR...LL..SGVA.Y.TA..F..SG.P.V...D.KGH.YT..vYDTAK..K..S..M.Y...DGD....RF.V..KHD..LSLLSVTSVVMVGG.Y----VAPVNTvkp....................................................................................................................
A0A0F6SKM6_9GAMC/1198-1506             .......................................................................TCKQKGVYLTEDGTSFKTLVL.KPGDTLG-HL.G.GVFAKNKT---VFTADDVEDEEVLF.T.PTTD---....-.---KAVL..EYY....G....L.DA.QK.Y.VIY..LQ..TL....SQ..K...WEV...QY..R..D..NFILLKWRDGNCWISSAMVLLQAA.K.IRFRG-FLAEAWAKFLGGDPTDFVAWCYA..SCNAK.VGDFSDCNWLLANLAEHFDADYTNALLKKRVSCNCGVK.SYELRGLEACIQpVRAPNLLHFKTQYSNCPTCGANSMDEVVEASLPYLLLV....ATDG...P.....A...A..V.DC...DE..NAAG.N.VV..F..IG.S.T...N.SGHcYT...-QAVG..K..A..F.D...NLA....QD.R..KFG..KRSPYITAMYMRFS.LKSKNSLSVAK.......................................................................................................................
A0A0K1Z0N1_SARS/1541-1859              .......................................................................EVKTIKVFTTVDNTNLHTQIV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFYV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQI.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLIQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HVTAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
B8Q8S4_SARS/1541-1859                  .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
R1A_CVH22/1599-1908                    .......................................................................EAKVITIKVTEDGVNVHDVTV.TTDKSFEQQV.G.VIADKDKDLSGAVPSDLNTSELLTK.A.IDVDWVE....F.YGFKDAV..TFA....T....V.DH.SA.F.A-Y..ES..AV....--..-...---...--..V..N..GIRVLKTSDNNCWVNAVCIALQYS.K.PHFISQGLDAAWNKFVLGDVEIFVAFVYY..VARLM.KGDKGDAEDTLTKLSKYLANEAQVQLEHYSSCVECDAKfKNSVASINSAIV.CASVKRDGVQVGY---CVHGIKYYSRVRSVRGRAIIVS....VEQL..eP.....C...A..Q.SR...LL..SGVA.Y.TA..F..SG.P.V...D.KGH.YT..vYDTAK..K..S..M.Y...DGD....RF.V..KHD..LSLLSVTSVVMVGG.Y----VAPVNTvkp....................................................................................................................
A0A0P0ILY9_CVH22/1033-1253             ...............................................................spfdmpyn---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...-E..L..N..GLKVLTQLDNNCWINSVLLQLQLT.G.V-FDD---DYAMQFFRMGRVSKMIERCYN..AEQCI.RGSMGDVGLCLYKLLKELHTGFMV--MD----YKCDCT.SGRLEESGSVLF.CAPTKRA---FPYGTCLNCNAPRMCTIRQLQGTIIFVQ....QKPE...P.....I...N.pS.DF...VV..KPIC.A.SV..F..RG.A.A...S.CGH.YQ..tNIYSQ..K..L..C.V...DGF....GV.N..KIR..A-------------.-----------wtndalnticvkdadytvkveppvn..............................................................................................
D9J203_9ALPC/1011-1256                 ............................vtdepivvsedveevvdeivsdvedetvtdddivspfafpnsm---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...--..I..N..GKVVLKQHQNNCWLNAAGYQLQCL.N.VL-----EDESFKQYCAGNVATFVQLMYA..VTNRN.IGDLGEAEYVLEQLLSSAQT----AKVKLSALCNCGTM.EELISGCVFRMR.CTSAT---FD--YGFCGVCNTVKKTTIVGIEGTGVFVH....D---...P.....A...N..Y.KP...IV..KPVC.K.AI..F..KG.S.T...T.GGH.YM..vHDVLA..K..V..L.V...DGF....GL.-..-HP..VQNLPFTSVCFVNA.NY---------vkdtpkca...............................................................................................................
B1PHI6_9ALPC/1168-1393                 ...................................eevkpeevidvssdlddvnkalsfmmpqetkfvdpf---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..K...FDY...FD..H..E..GIRVLRQNNNNCWVATTLVQLQLS.G.LLDD----DDSMALFKAGSVSPLVRKCYN..ATGAI.MGSLGDSSQCLEVLLKDL----HSMFITCDSTCGCGSG.TYELSG--SVFR.FMP-TRDSFDYGA--CTVCGKVLKLKIKTLVGTGIFCQ....D-PK...P....fN...T..A.RA...IV..KPIC.A.SI..Y..QG.S.T...T.SGH.YK...TNVYG..K..-..-.-...---....--.-..---..--------------.-----------rfcvdgsgvssi...........................................................................................................
A0A023YA54_MERS/1581-1907              ....................................................................qql---TIEVLVTVDGVNFRTCVL.NNQSTYRAQV.G.CVFLDGADISDTIPDEKQNGLGLFL.A.DNLSAAE....K.DVLK--Q..LYG....T....P.DD.TF.L.YRY..YS..LKa..kVA..G...WKM...LV..C..D..KARSLRLSDANCYMNVVIMMLDLLrD.IRFTVPALQQAYIKHKGGDSTDFIALIMT..YGNCT.FGAPDDATRLLHIVLAKAELCVTARMVWREWCNVCGTK.DVTFQGLKACCY.VGMQTLDELRARTTYTCQCGGERHRQLIEHNTPWLLLS....GKPS...E.....Q...I..V.ST...ATspDFEA.F.NV..F..LG.SeT...S.VGH.YV...HVRVK..D..S..LlYk.yDSG....SL.T..KAS..DWKCKVTDILYPGQ.KYTS-------dcnvvvy................................................................................................................
Q0PL14_9ALPC/1483-1778                 ....................................................................scs----IPVNVTEDNVNHERVSV.SFDKTYGEQLkG.TVVIKDKDVTNQLPSAFDVGQKVVK.V.IDIDWQA....H.YGFRDAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..S..NFIVHKQTDNNCWINAICLALQRL.K.PQWKFPGVRGLWNEFLERKTQGFVHMLYH..ISGVK.KGEPGDAELMLHKLGDLMDNDCEIIVTHTTACDKCAKV.EKFVGPVVAA--.--PLAIH----GTDETCVHGVSVNVKVTQIKGTVAITS....L-IG...P.....I...I..-.GE...VL..EATG.Y.IC..Y..SG.S.N...R.NGH.YT...YYDNR..N..G..L.V..vDAE....KA.Y..HFN..RDLLQVTTAI----.-----------asnfvvkkp..............................................................................................................
R1AB_BCHK9/1424-1739                   .....................................................................pl----IKVLTTVDGINYSTVLV.STAQSYRAQI.G.TVFCDGHDWSNKNPMPTDEGTHLYK.Q.---DNFS....S.AEVTAIR..EYY....G....V.DD.SN.IiARA..MS..IRk..tVQ..T...WPY...TV..V..D..GRVLLAQRDSNCYLNVAISLLQDI.D.VSFSTPWVCRAYDALKGGNPLPMAEVLIA..LGKAT.PGVSDDAHMVLSAVLNHGTVTA-RRVMQ-TVCEHCGVS.QMVFTGTDACTF.YGSVVLDDLYAPVSVVCQCGRPAIRYVSEQKSPWLLMS....C--T...P.....T...Q..V.PL...DT..SGIW.K.TAivF..RG.P.V...T.AGH.YM...YAVNG..TliS..V.Y...DAN....TR.R..RTS..DLKLPATDILYGPT.SFTS-------dskve..................................................................................................................
R1A_BC279/1547-1865                    .......................................................................EVRTIKVFTTVDNTNLHTQIV.DMSMTYGQQF.G.PTYLDGADVTKIKPHAKHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..I..G..GLTSIKWADNNCYLSSVLLALQQI.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNRT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKTCGQK.STTLTGVEAVMY.MGTLSYEELKTGVTIPCICGRDATQYLVQQESSFVMMS....A---...P.....P...S..E.YT...LQ..QGAF.L.CAneY..TG.S.Y...Q.CGH.YT...HVTVK..E..T..L.Yr.iDGA....YL.T..KMS..EYKGPVTDVFYKEI.SYTTTIKPVSY.......................................................................................................................
A3EXC0_BCHK4/1533-1858                 ...................................................................qqvn----IEVLVTIDGVNFRTVIL.NDTTTFRKQL.G.ATFYKGVDISDALPTVKMGGESLFV.A.DNLSESE....K.VVLK--E..YYG....T....S.DV.TF.L.QRYysLQ..PL....VQ..Q...WKF...VV..H..D..GVKSLKLSNYNCYINATIMMIDMLhD.IKFVVPALQNAYLRYKGGDPYDFLALIMA..YGDCT.FDNPDDEAKLLHTLLAKAELTVSAKMVWREWCTVCGIR.DIEYTGMRACVY.AGVNSMEELQSVFNETCVCGSVKHRQLVEHSAPWLLVS....GLNE..vK.....V...S..T.ST...DP..IYRA.F.NV..F..QGvE.T...S.VGH.YV...HIRVK..D..G..L.FykyDSG....SL.T..KTS..DMKCKMTSVWYPTV.RYTA-------dcnvvvy................................................................................................................
A0A125R5A3_9ALPC/1019-1313             ............tadaedvsetvsvvavedsveqvslveensvltpavnpdeqlssveenaevsakndpwa---------------------.----------.-.-------------------------.-.-------....-.-------..--A....A....V.DE.QE.A.EQP..KP..SL....-T..P...FKT...TN..L..N..GKIILKQQDNNCWINACCYQLQAF.D.F-FN----HDLWDGFKKDDVMPFVEFCYA..ALTLK.QGDSGDAEYLLETML----NDYSTAKVTLSAKCGCGVK.EIVL---ERTVF.KLTPLRNEFKYGV--CGDCKQINMCKFASVEGSGVFVHd..rIEKQ...T.....P...V..S.QF...IV..PPTM.H.AV..Y..TG.T.T...Q.NGH.YM..iDDCVQ..D..Y..C.V...DG-....--.-..---..--------------.-----------mgikprkhkfytstlflnanvmtadsktmvelhvp....................................................................................
A0A0U1WHG1_9ALPC/1450-1752             ...................................................................tsvf------VVVTENGRDFETVAL.DTAKTFVEQV.G.VCTIDNVDVTNAVVTPTDEP-VSVA.T.PSVDWDA....F.YGFENAS..VFH....T....L.DH.SG.F.E-F..ES..TV....--..-...---...--..V..E..GKRTLKSSDNNCWVNAVCLQLQYL.D.AKFVSEGLNAMWDSYVTGNVSKFVHWLYW..ITDHS.KNDRNDAESVLLRLSVYLCKSCVFTIERETSSLCCS--.--ELRTYNACVV.SASVLRNGVSDGV---CKHGDAYKSRVSAVDGIGIVVS....VSIP..dP.....V...P..K.SA...LL..DGVS.Y.TT..F..TG.D.V...G.SGH.YA...--VVD..R..K..L.YksfDGF....DV.K..PAS..LSSVSVTGVVVKTA.KFTRKVKQVA-t......................................................................................................................
T2B9U0_MERS/1481-1806                  ....................................................................qql---TIEVLVTVDGVNFRTVVL.NNKNTYRSQL.G.CVFFNGADISDTIPDEKQNGHSLYL.A.DNLTADE....T.KALK--E..LYG....P....V.DP.TF.L.HRF..YSlkAA....VH..K...WKM...VV..C..D..KVRSLKLSDNNCYLNAVIMTLDLL.KdIKFVIPALQHAFMKHKGGDSTDFIALIMA..YGNCT.FGSPDDASRLLHTVLAKAELCCSARMVWREWCNVCGIK.DVVLQGLKACCY.VGVQTVEDLRARMTYVCQCGGERHRQIVEHTTPWLLLS....GTPNe.kL.....V...T..T.ST...AP..DFVA.F.NV..F..QGiE.T...A.VGH.YV...HARLK..G..G..L.IlkfDSG....TV.S..KTS..DWKCKVTDVLFPGQ.-----------kyssdcnvvr.............................................................................................................
R1AB_BC512/1637-1948                   .......................................................................EAKPVQVVVTQDQRSFHTVEL.STSQTYGQQL.G.DCVVEDKKVTNLKPVS--KDKVVSV.V.PNVDWDK....H.YGFVDAG..IFH....T....L.DH.TM.F.V-F..DN..NV....--..-...---...--..V..N..GKRVLRTSDNNCWINAVCLQLQFA.N.AKFKPKGLQQLWESYCTGDVAMFVHWLYW..ITGVE.KGEPSDAENTLNIISRFLKPQGSVEMLR-ATSTTCDGT.CSTKRVVSTPVV.NASVLKVGLDDGN---CVHGLPLVDRVVSVNGTVIITN....VGDT...PgkpvvA...T..E.NL...LL..DGVS.Y.TV..F..QD.S.T..tG.VGH.YT..vFDKEA..K..L..M.F...DGD....VL.K..PCD..LNVSPVTSVVVCNN.KKIVVQDPV--kr.....................................................................................................................
A0A0K2RVJ3_9BETC/1565-1878             ....................................................................fvd---KIDVLLTVDGVNFVTRYV.PCGEVFGKTL.G.NVFCDAINVTKCKAEQKYKGKVFFQ.F.DNLSNAD....L.KAVK---..SSF....N....F.DQ.KE.L.LAY..YN..VLv..nCG..K...WQI...VV..N..G..KYFTFKQANNNCFVNVACLMLQNV.N.LKFVSVQWQEAWLEFRAGKPLRFVALVYA..KGSFK.FGDPADARDFIRVVLSQT--DLADAACDYEIVCKCGVK.QEQRKGIDAVMH.FGTLNREDLENGYTIDCSCGDKLIH-CTRIKVPFLICS....N---...T.....P...K..D.NV...LP..KGVI.C.AN.vF..TG.D.-...N.VGH.YT...HLRCD..S..S..Y.Ql.fDAS....NV.K..KIT..TVSGKITDCLYLKN.LK---------qtfrsvlt...............................................................................................................
B1PHK0_9ALPC/1750-2051                 ..................................................................ttpsv------VKVTEDGRTVKDVVV.STTTTAGDQL.G.PCAVEGASLTTSVVTDVVN-SVVAV.A.PNVDWDS....H.YGFKDAG..NFH....V....L.DH.SA.Y.A-Y..DS..DF....--..-...---...--..V..D..GKRALAGSDNNCWVNATCLQLQFA.G.VEFLSKGVTAMWNEFLTGDVARFVHWLYW..LNGAS.KGDLGDVETTLNLVAKHAKPKGCVTIEKTTVDGCCVSE.----KRVNSLVV.NASVLRQGVGDGY---CQHGNEYIIRVSRVEGTAIIVN....VGDP..sV.....K...A..P.NL...LI..SGTA.Y.TA..F..SG.P.I...D.AGH.YR..vYCSAT..S..K..V.F...DGK....SI.V..GGD..LCNLAVTSVVVVNK.FFK--------aevcna.................................................................................................................
R1A_BCHK4/1523-1848                    ...................................................................qqvn----IEVLVTIDGVNFRTVIL.NDTTTFRKQL.G.ATFYKGVDISDAFPTVKMGGESLFV.A.DNLSESE....K.VVLK--E..YYG....T....S.DV.TF.L.QRYysLQ..PL....VQ..Q...WKF...VV..H..D..GVKSLKLSNYNCYINATIMMIDMLhD.IKFVVPALQNAYLRYKGGDPYDFLALIMA..YGDCT.FDNPDDEAKLLHTLLAKAELTVSAKMVWREWCTVCGIR.DIEYTGMRACVY.AGVNSMEELQSVFNETCVCGSVKHRQLVEHSAPWLLVS....GLNE..vK.....V...S..T.ST...DP..IYRA.F.NV..F..QGvE.T...S.VGH.YV...HIRVK..D..G..L.FykyDSG....SL.T..KTS..DMKCKMTSVWYPTV.RYTA-------dcnvvvy................................................................................................................
S5Z1D1_9ALPC/1674-1976                 ....................................................................dgq----FRVEVTQDQRTYSVKSL.DASKTMGEQL.G.TCSVDNTNVSDQRPTSDIS--KVTV.A.PAVDWDV....H.YGFVGAA..SFH....I....L.NH.EA.F.E-Y..PS..SV....--..-...---...--..Q..N..GKRVLKTSDNNCWVNAVCLQLQFA.N.AKFVGTGLQTLWDEYLVGNVAGFVHWLYW..LAGVQ.KGDPGDAEDTLNLISKFLQSQGHVVVDRTTVDSCCSSQ.RTLVTP----VV.NGSILRMGVDDGA---CKHGSTFINKVVSINGTVILVN....V--G...P.....PissA..P.TS...FI..QGLS.Y.TS..F..NN.T.V...GgVGH.YT..vYDSTQ..H..G..F.Y...DGD....VF.V..RGE..LAMQPVTALVARHS.HY---------vvkdpvks...............................................................................................................
E0ZN51_BCHK9/1419-1736                 ....................................................................etl----IKVLTTVDGINYNTVLV.SREQTYRAQI.G.TVFCDGRDYSDRRPTTADEGVHLFK.-.--QDNFS....M.EELQSMR..EYY....G....V.ED.PN.IvARA..MS..VRk..iVQ..Q...WPY...AV..I..D..GRVLLAQRDSNCYVNVALSLLQDV.D.VTFTTPWVARAYSALKGGNPLPMAEVLIA..LSKAT.PGECDDAHMVLSTVLNHGTVDARRVMQ--TVCEVCGVS.QFVFTGTDACTF.YGSVMLDDLYEPVSIVCACGRSAIRYVLEQRSPWLLMS....H--T...P.....T...Q..V.PL...DT..SGNW.Q.AAivF..RG.P.V...T.AGH.YM...YAVNG..T..L..I.Sv.fDAN....TR.K..RTS..DLKLPATDILYGPT.SFTSAS-----kvet...................................................................................................................
R1A_BCHK9/1424-1739                    .....................................................................pl----IKVLTTVDGINYSTVLV.STAQSYRAQI.G.TVFCDGHDWSNKNPMPTDEGTHLYK.Q.---DNFS....S.AEVTAIR..EYY....G....V.DD.SN.IiARA..MS..IRk..tVQ..T...WPY...TV..V..D..GRVLLAQRDSNCYLNVAISLLQDI.D.VSFSTPWVCRAYDALKGGNPLPMAEVLIA..LGKAT.PGVSDDAHMVLSAVLNHGTVTA-RRVMQ-TVCEHCGVS.QMVFTGTDACTF.YGSVVLDDLYAPVSVVCQCGRPAIRYVSEQKSPWLLMS....C--T...P.....T...Q..V.PL...DT..SGIW.K.TAivF..RG.P.V...T.AGH.YM...YAVNG..TliS..V.Y...DAN....TR.R..RTS..DLKLPATDILYGPT.SFTS-------dskve..................................................................................................................
R1A_BCHK5/1557-1885                    .....................................................................qq--KNVDVLVTIDGVNFRTVVL.NNTTTYRVQL.G.SVFYKGSDISDTIPTEKMSGEAVYL.A.DNLS---....-.EAEKAVLseVYG....T....A.DT.AF.L.HRY..YS..LLa..lVK..K...WKY...TV..H..D..GVKSLKLNSNNCYVNVTMLMLDML.KeIKFIVPALQAAYLKHKGGDSTEFIALIMA..YGDCT.YGEPDDASRLLHTILSKAELTTQAKMVWRQWCNVCGVQ.DTTTTGLKACIY.VGMNSLDELHATHEECCQCGDVRKRQLVEHNAPWLLLSglneAKVM..tP.....T...S..Q.SA...GP..DYTA.F.NV..F..QGvE.T...S.VGH.YL...HVRVK..D..N..LlYk.yDSG....SL.S..KTS..DMKCKMTDVYYPKQ.RY---------sadcnvvv...............................................................................................................
A0A088DIE1_9BETC/1680-2003             .....................................................................ml--KEVTVYTTVDGTNVNTKIL.ICSKSFGSQL.G.TCYIDGEDVTSVFPTKQHEGKIV-N.I.TQVDDVT....S.SQVK---..EYY....G....VeDT.SF.L.TRY..NS..ALm..hVN..R...WSF...AE..VpsT..GIFCIKWVANNCYLNAAILMLQQL.N.VEYETPAVREAAFEMRAGKPQRFVALMIA..YLKAT.IGHTGDAREAVRTMLSHAKVQGERHFVM--MCKKCGIR.RSQFHGLDAVMCfTTNTQLSDFLSGDEAGCTCGDIVPVYQTHIRVPFLILS....TTEP...K.....M...Q..M.LN...CE..DTKF.L.CAnnY..MG.T.L...S.SGH.YT...HVFNK..T..L..L.Ys.vNGT....RV.T..KMS..ETTTAVADAVYKDI.KYDT-------edqfvty................................................................................................................
A0A140ESF0_9NIDO/1103-1286             ...........lnrtivrtttdydqvttkaltpqgvleanlfdgedfvqepkpgqiylevteevqnqakel---------------------.----------.-.-------------------------.-.-------....-.-------..---....D....L.NL.QQ.Y.CVY..LK..TC....HH..K...WVV...SR..T..N..GLMHLKQKDNNCFVSAGVNLFQNT.A.YQLRP-AIDALYREYLNGNPNRFVAWIYA..STNRR.VGEMGCPQQVISLLVSNSDA------------------.------------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------afsattaccntyfnhtgvisva.................................................................................................
Q0PL14_9ALPC/1013-1283                 ...........................................asegaegissqeeaetvevadltsteed---------------------.----------.-.-------------------------.-.--VDIIE....V.SAKD-DP..WAA....A....V.DV.QE.A.EQF..NP..SL....-P..P...FKT...TN..L..N..GKIILKQGDNNCWINACCYQLQAF.D.F-FN----NEAWEKFKKGDVMDFVNLCYA..ATTLA.RGHSGDADYLLELMLN--DYSTAKIVL--AATCGCGEK.EIVLE--RAVFK.LTPLK-ESFSYGV--CGDCMQVNTCRFLSVEGSGVFVHd.ilSKQT...P.....E...-..S.MF...IV..KPVM.H.AV..Y..TG.T.T...Q.NGH.YM...VD---..-..-..-.-...---....--.-..---..--------------.-----------diehgycvdgmgikplkkrcytstlfinanvmtraekp.................................................................................
A0A0U1UZ20_9ALPC/1750-2051             ..................................................................ttpsv------VKVTEDGRTVKDVVV.STTTTAGDQL.G.PCAVEGASLTTSVVTDVVN-SVVAV.A.PNVDWDS....H.YGFKDAG..TFH....V....L.DH.SA.Y.A-Y..DS..DF....--..-...---...--..V..D..GKRALAGSDNNCWVNATCLQLQFA.G.VEFLSKGVTAMWNEFLTGDVARFVHWLYW..LNGAS.KGDLGDVETTLNLVAKHAKPKGCVTIEKTTVDGCCVSE.----KRVNSLVV.NASVLRQGVGDGY---CQHGNEYIIRVSRVEGTAIIVN....VGDP..sV.....K...A..P.NL...LI..SGTA.Y.TA..F..SG.P.I...D.AGH.YR..vYCSAT..S..K..V.F...DGK....NI.V..GGD..LCNLAVTSVVVVNK.FFK--------aevcna.................................................................................................................
R1AB_CVMA5/1608-1919                   ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIYKGKVFFQ.Y.SDLSEAD....L.VAVKDA-..--F....G....F.DE.PQ.L.LKY..YT..ML...gMC..K...WPV...VV..C..G..NYFAFKQSNNNCYINVACLMLQHL.S.LKFPKWQWQEAWNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSIDFMRVVLREADLSGATCNLE--FVCKCGVK.QEQRKGVDAVMH.FGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLICS....N--T...P.....E...G..R.KL...PD..DVVA.A.NI..F..TG.G.-...S.VGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.N..KVS..EAKGNFTDCLYLKN.LKQT-------fssvlt.................................................................................................................
#=GR R1AB_CVMA5/1608-1919        SS    ....................................................................S-E----EEEEEESSSSSEEEEEE.ETTSBHHHHH.-.SEEETTEE-TTSB--GGGTT-EEEE.-.SS--HHH....H.HHHHHH-..--H....-....-.-H.HH.H.HHH..HH..HH...HH-..-...--E...EE..E..T..TEEEE-S-TT-HHHHHHHHHHTT-.-.---SSHHHHHHHHHHHTT--HHHHHHHHH..HSS--.TT--B-HHHHHHHHHHHS--TT-EEEEE--EEETTEEE.EEEEETHHHHEE.ES-S-HHHHHH-EEEEETTEEEEE-EEEEEE-SEEEEE....E--E...E.....E...-..-.--...-T..T-SE.E.EE..E..EE.S.-...S.SEE.EE...EEETTTT-..E..E.E...ETT....EE.E..E-S..S--S-EEEEEEESS.--XX-------XXXXXX.................................................................................................................
H9AA60_9BETC/1577-1890                 ....................................................................fvd---KIDVLLTVDGVNFTTRYV.PLGEVFGKTL.G.NVFCDAINVTKCKAEQKYKGKVFFQ.F.DNLSNAD....L.KAVKS--..-SF....N....F.DQ.KE.L.LAY..YN..VLv..sCG..K...WQI...VV..N..G..KYFTFKQANNNCFVNAACLMLQNV.N.LKFVSMQWQEAWLEFRAGKPLRFVALVYA..KGAFK.FGDPADARDFIRVVLSQT--DLAEAACDYEIVCKCGVK.QEQRKGIDAVMH.FGTLSREDLEKGYTIDCGCGDKLIH-CTRINVPFLICS....N---...T.....P...K..D.SV...VP..KGVT.CaNV..F..IG.S.-...N.VGH.YT...HLRCD..S..S..Y.Ql.fDAS....IV.K..KIT..TVNGKITDCLYLKN.LK---------qtfrsvlt...............................................................................................................
B2BW32_9GAMC/1139-1441                 .................................................................vsevvy-------YSTFDGVNYKTHKFsNLGKLVKDVI.GdKVYVDGVCVDNKPLFEIQPGSTFLR.LyPISD-AD....K.QH---IK..NYY....E....L.SS.KQ.Y.GVF..AA..VY....AR..E...HPI...IE..S..G..GLRYLKQKNNNCFVSTALVMLQHL.K.LEFKG-IVKELWSNFLAGDARGIVAYTYAllYPTVK.YGDMGDAEEVVLKYLNKAKLCA---QLTLNIKCKCGER.NHTFSGVDAVYC.IADVSTRHKALTSRIVCACD-NVKSSIVYADLPFVFVH....R--N...V.....T...T..K.IK...LE..ED-F.V.CAniF.kHG.S.H...Y.CGT.--...-----..-..-..-.-...---....--.-..---..--------------.-----------namysydsmsskagkpilessfsaivfegffka......................................................................................
A3EXA2_BCHK4/1523-1848                 ...................................................................qqvn----IEVLVTIDGVNFRTVIL.NDTTTFRKQL.G.ATFYKGVDISDAFPTVKMGGESLFV.A.DNLSESE....K.VVLK--E..YYG....T....S.DV.TF.L.QRYysLQ..PL....VQ..Q...WKF...VV..H..D..GVKSLKLSNYNCYINATIMMIDMLhD.IKFVVPALQNAYLRYKGGDPYDFLALIMA..YGDCT.FDNPDDEAKLLHTLLAKAELTVSAKMVWREWCTVCGIR.DIEYTGMRACVY.AGVNSMEELQSVFNETCVCGSVKHRQLVEHSAPWLLVS....GLNE..vK.....V...S..T.ST...DP..IYRA.F.NV..F..QGvE.T...S.VGH.YV...HIRVK..D..G..L.FykyDSG....SL.T..KTS..DMKCKMTSVWYPTV.RYTA-------dcnvvvy................................................................................................................
K4K1U5_9ALPC/1636-1939                 .....................................................................es--AVVKVKVTHDGRDVHTVKV.KTDVVLDEQV.G.VCSLNNCDLTGVKPDDAIVD-VVSV.A.PEVDWIS....Y.YGFPRAD..LYH....T....L.DH.KQ.Y.A-Y..EN..SD....--..-...---...--..V..E..GKRVLKFSDNNCWVNTICLQLQFA.K.AIFKTEGLQAMWDEFLTGRVERFVHWLYW..YQNIE.KGQPGDVEYLLGRISRYLVNSGTVTISKDSVCCN--SKrTLTTPVVE----.-ASILKSGFDDGV---CKHGNACVSRVSAVRGTVIVIQ....T-GK...P.....K...VypR.AA...LI..DGDT.Y.TT..Y..SG.S.V...E.DGH.YT..vFENKN..S..R..V.Y...DGD....TVsT..GND..LSTHAVSSVVVANK.LF---------ddpievvar..............................................................................................................
S5YAF0_9ALPC/1106-1299                 ................................................................tsdtfay---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...-PF...KD..Y..N..GVKVLDQQSNNCWVNSTLLQLQLL.G.VI--G--DDSAMALFKVGRVGPMVKRCYE..AVGAI.KGSLGDVSQCMEVLLRDVK----TLTVHCDTVCDCGSG.AKT---------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------fvgcafrfepttepfpygccqnckqvllhtitsisgtgvfcreptpfdisvmpirplcaanyvgavdgghymtniytnnvavdghgvhv..............................
R1A_CVH22/994-1247                     .............................qqaqqeatlpdiaedvvdqveevnsifdietvdvkhdvspfe---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...MPF...EE..L..N..GLKILKQLDNNCWVNSVMLQIQLT.G.I-LDG---DYAMQFFKMGRVAKMIERCYT..AEQCI.RGAMGDVGLCMYRLLKDLHTGFM--VMDYK----CSCT.SGRLEESGAVLF.CTPTKKA-F--PYGTCLNCNAPRMCTIRQLQGTIIFVQ....QKPE...P.....V...N.pV.SF...VV..KPVC.S.SI..F..RG.A.V...S.CGH.YQ...TNIYS..Q..-..-.-...---....--.-..---..--------------.-----------nlcvdgfgvnkiqpwtndalnticikdadynakv.....................................................................................
R1A_SARS2/1564-1882                    .......................................................................EVRTIKVFTTVDNINLHTQVV.DMSMTYGQQF.G.PTYLDGADVTKIKPHNSHEGKTFYV.L.PNDDTLR....V.EAFE---..YYH....T....T.DP.SF.L.GRY..MS..ALn..hTK..K...WKY...PQ..V..N..GLTSIKWADNNCYLATALLTLQQI.E.LKFNPPALQDAYYRARAGEAANFCALILA..YCNKT.VGELGDVRETMSYLFQHANLDSCKRVLN-VVCKTCGQQ.QTTLKGVEAVMY.MGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMS....A---...P.....P...A..Q.YE...LK..HGTF.T.CAseY..TG.N.Y...Q.CGH.YK...HITSK..E..T..L.Yc.iDGA....LL.T..KSS..EYKGPITDVFYKEN.SYTTTIKPVTY.......................................................................................................................
Q0ZJB1_CVHK1/1647-1959                 ......................................................................l-AKKIDVLLTVDGVNFKSISL.TVGEVFGKIL.G.NVFCDGIDVTKLKCSDFYADKILYQ.Y.ENLSLAD....I.SAVQ---..SSF....G....F.DQ.QQ.L.LAY..YN..FL...tVC..K...WSV...VV..N..G..PFFSFEQSHNNCYVNVACLMLQHI.N.LKFNKWQWQEAWYEFRAGRPHRLVALVLA..KGHFK.FDEPSDATDFIRVVLKQADLSGAIC--ELELICDCGIK.QESRVGVDAVMH.FGTLAKTDLFNGYKIGCNCAGRI-VHCTKLNVPFLICS....N--T...P.....L...S..K.DL...PD..DVVA.A.NM..F..MG.-.V...G.VGH.YT...HLKCG..S..P..Y.Qh.yDAC....SV.K..KYT..GVSGCLTDCLYLKN.L----------tqtftsmlt..............................................................................................................
A0A0P0ILY9_CVH22/1599-1905             .......................................................................EAKVITIKVTEDGVNVHDVIV.STDKPFEQQV.G.VIADKDKDLSGAVPSDLNTSELLTK.A.IDVDWVK....F.YGFEDAT..TFA....T....L.DH.SA.F.A-Y..EN..VV....--..-...---...--..V..N..GMRVLKTSNNNCWVNAVCVALQYL.K.PRFVSEGLDAAWNKFVLGDVQTFVAFVYH..VAGSV.KGSKGDAEDTLNKLSKYIANEAQVQLENYSSCVECAPKfKNSIASINSAIV.CAGVKRDGVQVGY---CDHGVKYYSRVRSVSGRAIIVS....VERL..eP.....C...A..Q.SR...LL..SGVA.Y.TA..F..SG.P.V...D.NGH.YT..vYDAAK..K..S..M.Y...DGD....RF.V..SHD..LSLLAVTSVVMVGG.Y----VAPV--vd.....................................................................................................................
R1AB_IBVB/1174-1482                    .......................................................................TCKQKTIYLTEDGVKYRSIVL.KPGDSLG-QF.G.QVYAKNKI---VFTADDVEDKEILY.V.PTTD---....-.---KSIL..EYY....G....L.DA.QK.Y.VIY..LQ..TL....AQ..K...WNV...QY..R..D..NFLILEWRDGNCWISSAIVLLQAA.K.IRFKG-FLTEAWAKLLGGDPTDFVAWCYA..SCTAK.VGDFSDANWLLANLAEHFDADYTNAFLKKRVSCNCGIK.SYELRGLEACIQpVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLLLF....ATDG...P.....A...T..V.DC...DE..DAVG.T.VV..F..VG.S.T...N.SGHcYT...-QAAG..Q..A..F.D...NLA....KD.R..KFG..KKSPYITAMYTRFA.FKNETSLPVAK.......................................................................................................................
#=GR R1AB_IBVB/1174-1482         SS    .......................................................................CXXXEEEEEESSSSSXEEEEE.XTTXXGG-GG.S.SXBXSSSX---XSSGGGXXTTXEEE.X.XX-----....-.---HHHH..CCC....T....-.-H.HH.H.HHH..HH..HT....T-..-...--E...EE..E..T..TEEEE---TTTHHHHHHHHHHHHT.T.--B-T-CHHHHHHHHHTT--HHHHHHHHH..HTT--.TT--B-HHHHHHHHHTTB-S-TTT-EEEEEEEETTEEE.EEEEEHHHHHEEEESSSSHHHHHEEEEE-TTTSSEEEEEEEEEEEEEEEEE....ESSS...-.....E...E..E.E-...-T..T-SE.E.EE..E..EC.-.T...T.SEEEEE...-EETT..E..E..E.-...SS-....TT.-..---..SEEEEEEEEEEEEE.EE----XXXXX.......................................................................................................................
B1PHJ4_9ALPC/1792-2098                 ....................................................................dtk----TTIKVSLDGRNVVDVDV.AADQTIGEQL.N.ACTTDNVIISDSVVTD-VIDTIVNV.A.PEVDWDS....F.YGFPHAA..EFH....M....L.DH.SA.F.A-F..DN..DV....--..-...---...--..V..D..GKRALVGTDNNCWINAVCLQLQFA.E.VDFTSEGLKDMWNEFLVGNVAKFCHWIYW..LVRAN.KGDAGDAENALNMLNKYVKAHGTVTLTR-ETAEGCCVN.EH---RINSFVV.NASVLRSGCNDGY---CKHGNAYIARVSKVDGVSVIVN....V-DR...P.....Sv.mS..D.NL...LL..SGTS.Y.TA..F..SG.P.M...D.SGH.YR..vFNPAT..S..K..M.F...DGA....NC.I..GGD..LCNLAVTAVVIKNK.V----------fkiqtadnntpvk..........................................................................................................
A0A0P0LKV0_CVH22/1033-1253             ...............................................................spfdmpyn---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...-E..L..N..GLKVLTQLDNNCWINSVLLQLQLT.G.V-FDD---DYAMQFFRMGRVSKMIERCYN..AEQCI.RGSMGDVGLCLYKLLKELHTGFMV--MD----YKCDCT.SGRLEESGSVLF.CAPTKRA---FPYGTCLNCNAPRMCTIRQLQGTIIFVQ....QKPE...P.....I...N.pS.DF...VV..KPIC.A.SV..F..RG.A.A...S.CGH.YQ..tNIYSQ..K..L..C.V...DGF....GV.N..KIR..A-------------.-----------wtndalnticvkdadytvkveppvn..............................................................................................
R1AB_CVH22/994-1247                    .............................qqaqqeatlpdiaedvvdqveevnsifdietvdvkhdvspfe---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...MPF...EE..L..N..GLKILKQLDNNCWVNSVMLQIQLT.G.I-LDG---DYAMQFFKMGRVAKMIERCYT..AEQCI.RGAMGDVGLCMYRLLKDLHTGFM--VMDYK----CSCT.SGRLEESGAVLF.CTPTKKA-F--PYGTCLNCNAPRMCTIRQLQGTIIFVQ....QKPE...P.....V...N.pV.SF...VV..KPVC.S.SI..F..RG.A.V...S.CGH.YQ...TNIYS..Q..-..-.-...---....--.-..---..--------------.-----------nlcvdgfgvnkiqpwtndalnticikdadynakv.....................................................................................
B6VDX7_THCOV/1079-1257                 ................................................................qlwdaln-----------------RVVV.RTTKDFD-QI.T.TQALTP---QGVLDANLFDGDKFVQ.E.PQPDC-V....Y.LAVDDVV..QTKakdlG....L.SL.SQ.Y.CSY..LK..MC....HH..K...WAT...VR..T..N..GILHLKQKDNNCFISAAINLFQVT.H.YKLRP-VIDELYQEYVNGNPNRLVAWIYA..SINQN.IGEMGCPQQVTSLLVSNA--------------------.------------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------nskffgtvhcckty.........................................................................................................
A0A0K1YZY7_SARS/1541-1859              .......................................................................EVKTIKVFTTVDNTNLHTQIV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFYV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQI.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLIQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HVTAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
A0A125R5A4_9ALPC/1493-1792             .....................................................................ng---TIPVKVTEDTVNHKRVSV.ALDKTYGEQLkG.TVVIKDKDVTNQLPSVSDAGEKVVK.A.LDVDWNA....H.YGFINAA..AFS....A....S.SH.DA.Y.K--..--..--....--..-...FEV...VT..H..N..NFIVHKQTDNNCWVNAICLALQRL.K.PTWKFPGVKSLWNDFLVRKTAGFVHMLYH..ISGLR.RGQPGDAELTLHKLGELMLSDGTVTITHTTACDKCA-K.TEIFTGP-----.VVAAPLLV--YGTDETCVHGVSVNVKVTSVRGTVAITS....L--I...G.....P...V..V.GD...VI..DATG.Y.IC..Y..TG.L.N...S.RGH.YT..yYDNRN..G..L..M.V...DAE....KA.Y..HFE..KNLLQVTTAIASN-.FCTETV-----pknq...................................................................................................................
R9QTB2_SARS/1533-1851                  .......................................................................EVKTIKVFTTVDNTNLHTQIV.DMSMTYGQQF.G.STYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALs..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQI.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSYKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDELKTGVSIPCVCGRNATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
Q9J3E9_9BETC/1605-1916                 ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIYKGKVFFQ.Y.SDLSEAD....L.VAVKDA-..--F....G....F.DE.PQ.L.LKY..YT..ML...gMC..K...WPV...VV..C..G..NYFAFKQSNNNCYINVACLMLQHL.S.LKFPKWQWQEAWNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSIDFMRVVLREADLSGATCNLE--FVCKCGVK.QEQRKGVDAVMH.FGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLICS....N--T...P.....E...G..R.KL...PD..DVVA.A.NI..F..TG.G.-...S.VGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.N..KVS..EAKGNFTDCLYLKN.LKQT-------fssvlt.................................................................................................................
B8Q8U7_SARS/1541-1859                  .......................................................................EVKTIKVFTTVDNTNLHTQLV.DMSMTYGQQF.G.PTYLDGADVTKIKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQL.E.VKFNAPALQEAYYRARAGDAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLESAKRVLN-VVCKHCGQK.TTTLTGVEAVMY.MGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QGTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
A8JNZ1_9ALPC/1585-1887                 .....................................................................kp--KDVKVKVTADGRNVNDVVV.TTAETFDAQL.G.PSANGVESLVGVVPTPMDSGRVVNT.A.PDVNWSK....H.FGFSDAA..AFA....V....L.DH.SK.F.A-F..DS..EV....--..-...---...--..V..D..GKRALADSDNNCWVNATCLALQFL.K.PTFKYVGWEDLWNKLRSGDVAGFVHLLYY..IEGVD.KGAKGDVESTLSKLDKYIVSSGSVTVERSTLCDRC---.NSTVKTVTGAIA.EASVILNGHADGH---CPHNFEWRVQVVGVKGDIILLH....SGSL...-.....-...L..N.GP...YV..YGDA.Y.VA..F..SG.N.I...D.NGH.YT..vFDNKL..S..K..M.Y...DGI....KC.V..KTT..LDTLVASSVVIRNG.SYAV-------ktehvp.................................................................................................................
A8JNZ1_9ALPC/1038-1255                 .............................................................raispfgfdt---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...NE..I..N..GRRVLYQSNNNCWVNAACYQLQVL.-.-GFDSPA----MELYRVGGTHNLVKQCYE..ATGAF.LGSLGDVAHCLEVLLKDAK--TAK-V-TVEVTCDCSSN.FEELSGA--FFR.FLP---LRSKFEYGSCFACHGTRYYRVCGIVGSAIFSQ....T-LK...P.....L...D..F.ND...LI..CDVAsA.SV..F..LG.D.-...D.CGH.YL..iNDYDK..R..L..C.V...DGM....GV.Y..KIR..HNTID-TIVVKDAD.IKPSTVAP---fte....................................................................................................................
A0A059VJE6_9ALPC/1629-1934             .....................................................................an--KSVVIKVTEDTRSVKTVKV.ESTVTYGQQI.G.PCLVNDTVVTDNKPVVA--DVVAKV.V.PSANWDS....H.YGFDKAG..EFH....M....L.DH.TG.F.A-F..PS..EV....--..-...---...--..V..N..GRRVLKTTDNNCWVNVTCLQLQFA.R.FRFKSAGLQAMWESYCTGDVAMFVHWLYW..LTGVD.KGQPSDSENALNMLSKYIVPAGSVTIER-VTHDGCCCS.---KRVVTAPVV.NASVLKLGVEDGL---CPHGLNYIDKVVVVKGTTIVVN....VGKP...V.....V...A.pS.HL...FL..KGVS.Y.TT..FldNG.N.G...V.AGH.YT..vFDHDT..G..M..V.H...DGD....VF.V..PGD..LNVSPVTNVVVSEQ.TAVVIKDPV--kk.....................................................................................................................
A0A1X9JQL5_9ALPC/1072-1289             ......................................................gshvainvnkfsttplv---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...-V..R..G..GYKHLQLRDNNCWANAVFVGLQLC.N.YYDNG---NVEWQCALSGANSRFLEHVYD..ANKTF.YGSTADAAQALER---MLDGDTCMTVTL-QCSCVCGGE.TVTLKA--SVFK.FRPVNGF-F--DYGVCPVCDAKIKALILHIDGKGFFCY....T---...A.....T...R..D.SK...LLfpGCVG.E.IV..Y..TG.A.D...I.GGH.YY...-IKYD..G..G..Y.H...DGT....-G.T..KHS..VKARSQVAVYN---.-----------vvglpkp................................................................................................................
H9BR07_9NIDO/1095-1274                 .............tvvrtttdydqittkaltpqgildanlfdgtefvqdpkpgqvylevtdevqqqakeld---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....L.TL.QQ.Y.AAY..LK..LC....HA..R...WSV...RR..T..N..GIMHLKQHMNNCFVSAGINLFQNT.R.FQLRP-AIDQLYKEYLNGNPSRLVAWIYA..STNHQ.IGDFGCPQEVTS--------------------------.------------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------lfvnnanstfsattaccgtyfthtgvisv..........................................................................................
D9J202_9ALPC/1012-1256                 .............................tdepivvsedveevvdeivsdvedetvtdddivspfafpnsm---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...---...--..I..N..GKVVLKQHQNNCWLNAAGYQLQCL.N.VL-----EDESFKQYCAGNVATFVQLMYA..VTNRN.IGDLGEAEYVLEQLLSSAQT----AKVKLSALCNCGTM.EELISGCVFRMR.CTSAT---FD--YGFCGVCNTVKKTTIVGIEGTGVFVH....D---...P.....A...N..Y.KP...IV..KPVC.K.AI..F..KG.S.T...T.GGH.YM..vHDVLA..K..V..L.V...DGF....GL.-..-HP..VQNLPFTSVCFVNA.NY---------vkdtpkca...............................................................................................................
R1A_IBVB/1174-1482                     .......................................................................TCKQKTIYLTEDGVKYRSIVL.KPGDSLG-QF.G.QVYAKNKI---VFTADDVEDKEILY.V.PTTD---....-.---KSIL..EYY....G....L.DA.QK.Y.VIY..LQ..TL....AQ..K...WNV...QY..R..D..NFLILEWRDGNCWISSAIVLLQAA.K.IRFKG-FLTEAWAKLLGGDPTDFVAWCYA..SCTAK.VGDFSDANWLLANLAEHFDADYTNAFLKKRVSCNCGIK.SYELRGLEACIQpVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLLLF....ATDG...P.....A...T..V.DC...DE..DAVG.T.VV..F..VG.S.T...N.SGHcYT...-QAAG..Q..A..F.D...NLA....KD.R..KFG..KKSPYITAMYTRFA.FKNETSLPVAK.......................................................................................................................
R1A_CVPPU/1025-1286                    ....................................................sqeevetvevaditsteed---------------------.----------.-.-------------------------.-.--VDIVE....V.SAKD-DP..WAA....A....V.DV.QE.A.EQF..NP..SL....-P..P...FKT...TN..L..N..GKIILKQGDNNCWINACCYQLQAF.D.F-FN----NEAWEKFKKGDVMDFVNLCYA..ATTLA.RGHSGDAEYLLELMLN--DYSTAKIVLA--AKCGCGEK.EIVLE--RAVFK.LTPLK-ESFNYGV--CGDCMQVNTCRFLSVEGSGVFVHd.ilSKQT...P.....E...A..M.F-...VV..KPVM.H.AV..Y..TG.T.T...Q.NGH.YM...VD---..-..-..-.-...---....--.-..---..--------------.-----------diehgycvdgmgikplkkrcytstlfinanvmtraekp.................................................................................
#=GR R1A_CVPPU/1025-1286         SS    ....................................................XXXXXXXXXXXXXXXXXXX---------------------.----------.-.-------------------------.-.--XXXXX....X.XXXX-XX..XXX....X....X.XX.XX.X.XXX..XX..--....--..-...--E...EE..E..T..TEEEE---TT-HHHHHHHHHHTT-.T.T--------HHHHHHTTT--HHHHHHHHH..HHT--.TTS---HHHHHHHHHT--T---EEEEEE--EEETTEEE.EEEEE--ESEEE.S--BS-S-EEEEE---TTT--EEEEEEEEEEEEEEEEEE.EE-S--...-.....G...G..G.B-...SS..--SE.E.EE..E..ES.-.T...T.T-E.EE...EE---..-..-..-.-...---....--.-..---..--------------.-----------ETTTTEEEETTEEE----S-EEEEEEEEEEEE-XXXXX.................................................................................
A0A0U1UZ20_9ALPC/1141-1360             ........................................................ealsfivdepsafvd---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..P...FKF...EY..Y..DhaGVRVLKQEVNNCWVASTLVQLQLY.-.-GFDS----DAMSLFKAGSVSPMVRRCYE..AVGAI.RGSLGDVSQCLEKLL----SDSHTMFMTFDVKCDCGAS.VAEMSG---AVF.RFMPTRDSFNYGA--CPTCRSVMVYKIKSMQGTGFFCQ....DPKP...F.....N...T..A.RS...LV..RPVS.A.SV..Y..SG.R.T...D.GGH.YK...-----..-..-..-.-...---....--.-..---..--------------.-----------tniydarvcvdgfgvtsittgnvnvillrdasy......................................................................................
U5KNA9_9BETC/1550-1873                 ...................................................................qqln----VEVLATVDGVNFRTVIL.NNKNTFRSQL.G.TVFLDGVDVSDTIPSVDKNGASVYI.A.DNFSKEE....L.AAVK---..EMY....G....VeDP.TF.L.YKY..YS..IR....AKvvK...WKM...AM..C..E..DAPSLCLNSNNCYLNAAVMMLDCLrD.IKFNIPALQAAYMKFKGGDFGDFISLLMA..YGNCT.YGQPDDASMLLHTALSKAELLVSARMVWREWCDHCGVK.DVVITGIKACVY.VGVQSLDELRECNHHICQCGGVRFRQLVECVTPWLLLS....G---...P.....P...N..E.EL...VAnpDFVA.F.NV..F..IG.HeA...G.VGH.FV...HARVK..K..G..LlYk.yDSG....TL.T..KAS..DWKCKVTDKLYPGQ.KYT--------aeceivvy...............................................................................................................
A0A0K2RW65_9BETC/1565-1878             ....................................................................fvd---KIDVLLTVDGVNFVTRYV.PCGEVFGKTL.G.NVFCDAINVTKCKAEQKYKGKVFFQ.F.DNLSNAD....L.KAVK---..SSF....N....F.DQ.KE.L.LAY..YN..VLv..nCG..K...WQI...VV..N..G..KYFTFKQANNNCFVNVACLMLQNV.N.LKFVSVQWQEAWLEFRAGKPLRFVALVYA..KGSFK.FGDPADARDFIRVVLSQT--DLADAACDYEIVCKCGVK.QEQRKGIDAVMH.FGTLNREDLENGYTIDCSCGDKLIH-CTRIKVPFLICS....N---...T.....P...K..D.NV...LP..KGVI.C.AN.vF..TG.D.-...N.VGH.YT...HLRCD..S..S..Y.Ql.fDAS....NV.K..KIT..TVSGKITDCLYLKN.LK---------qtfrsvlt...............................................................................................................
A0A0U2UMS4_9ALPC/1037-1285             ................................tsteedvdivevtakddpwaaavdvqeaeqfkhspppfr---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...--T...TN..L..N..GKIILKQEDNNCWINACCYQLQAF.D.F-FN----NEAWEKFKKGDVMEFVNLCYA..ATTLA.RGHSGDADYLLELMLN--DYSTAKIVL--AANCGCGEK.EIVL---ERTVF.KLTPLKESFSYGV--CGDCMQVNNCRFLSVEGSGVFVHd.ilSKQT...P.....E...-..S.MF...VV..KPVM.H.AV..Y..TG.T.T...Q.NGH.YM...VD---..-..-..-.-...---....--.-..---..--------------.-----------diehgycvdgmgikplkkrfytstlfinanvmtraekp.................................................................................
R1AB_BCHK4/1523-1848                   ...................................................................qqvn----IEVLVTIDGVNFRTVIL.NDTTTFRKQL.G.ATFYKGVDISDAFPTVKMGGESLFV.A.DNLSESE....K.VVLK--E..YYG....T....S.DV.TF.L.QRYysLQ..PL....VQ..Q...WKF...VV..H..D..GVKSLKLSNYNCYINATIMMIDMLhD.IKFVVPALQNAYLRYKGGDPYDFLALIMA..YGDCT.FDNPDDEAKLLHTLLAKAELTVSAKMVWREWCTVCGIR.DIEYTGMRACVY.AGVNSMEELQSVFNETCVCGSVKHRQLVEHSAPWLLVS....GLNE..vK.....V...S..T.ST...DP..IYRA.F.NV..F..QGvE.T...S.VGH.YV...HIRVK..D..G..L.FykyDSG....SL.T..KTS..DMKCKMTSVWYPTV.RYTA-------dcnvvvy................................................................................................................
A0A0U1UZA8_9ALPC/1125-1392             .............................................................vvedviaade---------------------.----------.-.--------VVDVETTTQVEEVTVVE.A.IEEDIVK....P.EEVIDVS..SDI....E....A.VN.QA.L.S-F..MK..PTetkfVD..P...FKF...DYydH..E..GIRVLRQNNNNCWVASTLVQLQLS.G.LLDD----DDTMALFKAGSVSPLVRKCYD..AVGAI.VGSLGDASHCLEVLLKDL----HTMFITCDATCGCGSS.SYELSG--SVFR.FMP-TRDSFSYGA--CGVCGKTLKLKIKTMTGTGFFCQ....DP-K...P....fN...T..A.RA...IV..KPVC.A.SI..Y..QG.S.T...T.SGH.YK...TNVFG..K..R..F.-...---....--.-..---..--------------.-----------cvdgsgvssisnghintillk..................................................................................................
A0A0U1WHG0_SARS/1536-1854              .......................................................................EVKTIKVFTTVDNTNLHTQVV.DMSMTYGQHF.G.STYLDGADVTKVKPHVNHEGKTFFV.L.PSDDTLR....S.EAFE---..YYH....T....L.DE.SF.L.GRY..MS..ALn..hTK..K...WKF...PQ..V..G..GLTSIKWADNNCYLSSVLLALQQI.E.VKFNAPALQEAYYRARAGEAANFCALILA..YSNKT.VGELGDVRETMTHLLQHANLEFAKRVLN-LVCKHCGQK.TTTLTGVEAVMY.MGTLSYDELKTGVSIPCVCGRDATQYLVQQESSFVMMS....A---...P.....P...A..E.YK...LQ..QSTF.L.CAneY..TG.N.Y...Q.CGH.YT...HITAK..E..T..L.Yr.iDGA....HL.T..KMS..EYKGPVTDVFYKET.SYTTTIKPVSY.......................................................................................................................
H9BZX6_9BETC/1610-1921                 ....................................................................ank----VDVLCTVDGVNFRSCCV.AEGEVFGKTL.G.SVFCDGINVTKVRCSAIHKGKVFFQ.Y.SGLSEAD....L.VAVKDA-..--F....G....F.DE.SQ.L.LKY..YN..ML...gMC..K...WPV...VV..C..G..NYFAFKQANNNCYVNAACLMLQHL.S.LKFPKWQWQEAWNEFRSGKPLRFVSLVLA..KGSFK.FNEPSDSTDFMRVVLREADLSGATCNLE--FVCKCGVK.QEQRKGIDAVMH.FGTLDKGDLVKGYNIACTCGSKLV-HCTQFNVPFLICS....N--T...P.....E...G..R.KL...PD..DVVA.A.NI..F..TG.G.-...N.LGH.YT...HVKCKpkY..Q..L.Y...DAC....NV.S..KVS..EAKGNFTDCLYLKN.LKQT-------fssvlt.................................................................................................................
A0A0P0LKV0_CVH22/1599-1905             .......................................................................EAKVITIKVTEDGVNVHDVIV.STDKPFEQQV.G.VIADKDKDLSGAVPSDLNTSELLTK.A.IDVDWVK....F.YGFEDAT..TFA....T....L.DH.SA.F.A-Y..EN..VV....--..-...---...--..V..N..GMRVLKTSNNNCWVNAVCVALQYL.K.PRFVSEGLDAAWNKFVLGDVQTFVAFVYH..VAGSV.KGSKGDAEDTLNKLSKYIANEAQVQLENYSSCVECAPKfKNSIASINSAIV.CAGVKRDGVQVGY---CDHGVKYYSRVRSVSGRAIIVS....VERL..eP.....C...A..Q.SR...LL..SGVA.Y.TA..F..SG.P.V...D.NGH.YT..vYDAAK..K..S..M.Y...DGD....RF.V..SHD..LSLLAVTSVVMVGG.Y----VAPV--vd.....................................................................................................................
A0A0U1WHG1_9ALPC/909-1107              ..................................................................pfafe---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...--F...TD..Y..C..GLKVLKQVNNNCWVASACLHMQLL.D.LLD-T----PAMDLYKCGRVGPLVQSCYE..SVKQL.VGSMGDVTECLEHMLKDV--KSCVVVCD--AVCDCGTK.DLTIEG---CVF.-RFMPCSEPLERW--CAVCNSMAACTIKGIKGTAIFCQ....K-PG...-.....P...A..N.DL...YV..EPYC.A.AS..F..IG.S.V...T.SGH.YRtnvYHT--..-..-..-.-...---....--.-..---..--------------.-----------gkavdgfgvhdidntnlhtyavk................................................................................................
S5Z1D1_9ALPC/1084-1219                 ...........................................eeeevndalsfmtesspkpceptsdtfa---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..--..--....--..-...YPF...KD..Y..N..GVKVLDQQSNNCWVNSTLLQLQLL.G.VI--G--DDSAMALFKVGRVGPMVKRCYE..AVGAI.KGSLGDVSQCMEVLLRDVK----TLTVHCDTVCDCGSG.------------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------aktfvgcafrfe...........................................................................................................
B1PHI6_9ALPC/1848-2154                 ....................................................................dtk----TTVKVSLDGRNVVDVDV.AADKTIGEQL.N.ACTTDNVIISNSVVT-DVIDTVVNV.A.PEADWDT....F.YGFPNAA..EFH....M....L.DH.SA.Y.A-F..DS..DV....--..-...---...--..V..D..GKRALVGTDNNCWVNAVCLQLQFA.E.VDFTSEGLKDMWNEFLVGNVAKFCHWLYW..LVRAT.KGDAGDAENALNMLAKYVKAHGTITITR-ETDDGCCAN.EHR---ISSFVV.NASVLRSGCTDGY---CKHGNAYTACVSKVDGVSVIVN....V-DR...P.....Sv.mS..D.NL...LL..TGTS.Y.TA..F..SG.P.M...D.SGH.YR..vYNPVT..S..K..M.F...DGA....NC.V..GGD..LCNLAVTAVVVKNKvFKMQTS-----nsntpvk................................................................................................................
A0A0F6WGL5_9GAMC/1198-1506             .......................................................................TCKQKGVYLTEDGTSFKTLVL.KPGDTLG-HL.G.GVFAKNKT---VFTADDVEDEEVLF.T.PTTD---....-.---KAVL..EYY....G....L.DA.QK.Y.VIY..LQ..TL....SQ..K...WEV...QY..R..D..NFILLKWRDGNCWISSAMVLLQAA.K.IRFRG-FLAEAWAKFLGGDPTDFVAWCYA..SCNAK.VGDFSDCNWLLANLAEHFDADYTNALLKKRVSCNCGVK.SYELRGLEACIQpVRAPNLLHFKTQYSNCPTCGANSMDEVVEASLPYLLLV....ATDG...P.....A...A..V.DC...DE..NAAG.N.VV..F..IG.S.T...N.SGHcYT...-QAVG..K..A..F.D...NLA....QD.R..KFG..KRSPYITAMYMRFS.LKSKNSLSVAK.......................................................................................................................
A0A1B3Q5W8_9BETC/1466-1787             ..................................................................ekktl----TKVLTTVDGVNYSTVLV.DDERTFQDQI.G.VVFHNGVDISSRVPNSDDANIQ---.L.FKQDNFS....P.EEVQAIS..DYY....G....V.ND.CT.V.VAR..AL..SVr.ryVR..T...WPY...SV..V..D..GRVLLAQRDSNCYLNAAISVLQDI.E.VEFSTPWISTAFDALKGGNPLPIVEVLIT..LGKTT.IGEPDDAHMILSSLLSYASVKAARRAIT-TVCENCGSS.QEIIEGVPACLH.YGTVQLDDLYKPESIVCPCGKAAIRFVSLQQTPWVLMS....H--V...P.....T...N..V.PL...DT..TGNW.F.SAvvF..KG.P.V...T.CGH.YM...YAVNG..SliS..V.Y...DAN....TR.K..RTS..DLLVPATDILYKDV.NFTTSSKVV--tf.....................................................................................................................
A0A059VJE6_9ALPC/1018-1285             .........................ssdpdkvadvansepeddglnvapetnveseveevaatlsfikdtp---------------------.----------.-.-------------------------.-.-------....-.-------..---....-....-.--.--.-.---..-S..TV....TK..DpfaFDF...AS..Y..G..GLKVLRQSHNNCWVTSTLVQLQLL.G.IVD-----DPAMELFSAGRVGPMVRKCYE..SQKAI.LGSLGDVSACLESLTKDLHT---LKITC-SVVCGCGT-.------------.--------------------------------------....----...-.....-...-..-.--...--..----.-.--..-..--.-.-...-.---.--...-----..-..-..-.-...---....--.-..---..--------------.-----------geriydgcafrmtptlepfpygacaqcaqvlmhtfksivgtgifcrdttalsldslvvkplcaaafigkdsghyvtnfydaamaidgygrhqikydtlnticvkdvnwtapfvpdvepv
#=GC SS_cons                           ....................................................XXXXXXXXXXXXXXXXSHEC-SEEEEEEESSSSSEEEEEE.ETTSBHHHHH.S.SEEETTEEGTTSCSGGGGTTTEEEE.-.SSSHHHH....H.HHHHHHH..HHS....T....X.XT.TH.H.HHH..HH..HHH..HHT..T...S-E...EE..E..T..TEEEE-S-TTTHHHHHHHHHHTTS.T.T-BSSHHHHHHHHHHHTT--HHHHHHHHH..HTT--.TTS-B-HHHHHHHHHTTBSSTTCEEEEEEEEECTTEEE.EEEEETHHHHEEEESSSSHHHHHHEEEEECTTSSEEEEEEEEEESSEEEEEE.EEESSC...E.....E...E..E.EE...EE..TTSE.C.EEEEE..EE.S.S...S.SEEEEE...EEEESTTS..S..E.EE.EETT....EE.E..EES..SEEEEEEEEEEECS.EEE--------ETTTTEEEETTEEE----S-EEEEEEEEEEEE-XXXXX.................................................................................
#=GC seq_cons                          ...........................................................................h.lhhT.Dshshps..l.s.s.shttph.G.sshhcshslop.hsp...tsphhh..h..p.s..p.......shp......hh....s....h.Dp.s..h.t.a...s...h............a.h.......h..s..GhhsLKpscNNCalNushltLQhl.c.lpFps.thpcuapca+sGcsssFVphlYs..hsstp.hGc.GDsppsLphlLp.hphpsshthhp.pssspCG.p.ptphpuhpushh.hushshpshphGh..sCsCGpshhtplsphpushlhss....s......P.....s...s..p.th...l...psss.h.ss..a..pG.s.h...s.sGH.Yp...a.tsp..p..t..h.h...Dut....ph.h..phs.....h.hTsshh................t.h.h.................................................................................................................
//
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