Supplementary Fig. S1. Intact SARS-CoV ORF8, alignment and deliniated mutations. A consensus sequence (reconstructed using the "majority" rule) and "mutated" sequence (all mutations merged together) are shown below the alignment. Query: ORF8; AY390556 Query 1 ATGAAACTTCTCATTGTTTTGACTTGTATTTCTCTATGCAGTTGCATACGCACTGTAGTA 60 AY394995.1 27764 ............................................................ 27823 AY394994.1 27764 ............................................................ 27823 AY394986.1 27728 ............................................................ 27787 AY394985.1 27529 ............................................................ 27588 AY394984.1 27732 ............................................................ 27791 AY394981.1 27725 ............................................................ 27784 AY515512.1 27756 ............................................................ 27815 AY390556.1 27779 ............................................................ 27838 AY304489.1 6620 ............................................................ 6679 AY304488.1 27764 ............................................................ 27823 AY304487.1 6614 ............................................................ 6673 AY304486.1 27764 ............................................................ 27823 AY278489.2 27763 ............................................................ 27822 AY686864.1 27738 ............................................................ 27797 AY613949.1 27729 ............................................................ 27788 AY613948.1 27729 ............................................................ 27788 AY572035.1 27731 ............................................................ 27790 AY572034.1 27753 ............................................................ 27812 AY545915.1 27747 ............................................................ 27806 AY686863.1 27728 ............................................................ 27787 AY613947.1 27729 ............................................................ 27788 AY545914.1 27756 ............................................................ 27815 AY572038.1 27708 ............................................................ 27767 AY568539.1 27729 ............................................................ 27788 AY613950.1 27729 ............................................................ 27788 AY545917.1 27743 ............................................................ 27802 FJ959407.1 27718 ............................................................ 27777 AY545919.1 27758 ............................................................ 27817 AY545918.1 27745 ............................................................ 27804 AY545916.1 27745 ............................................................ 27804 Consensus ATGAAACTTCTCATTGTTTTGACTTGTATTTCTCTATGCAGTTGCATACGCACTGTAGTA Mutated DownloadNextPreviousFirst Range Query range 2: 61 to 120 Query 61 CAGCGCTGCGCATCTAATAAACCTCATGTGCTTGAAGATCCTTGTCCTACTGGTTACCAA 120 AY394995.1 27824 ............................................................ 27883 AY394994.1 27824 ........T................................................... 27883 AY394986.1 27788 ........T................................................... 27847 AY394985.1 27589 ........T................................................... 27648 AY394984.1 27792 ........T................................................... 27851 AY394981.1 27785 ........T................................................... 27844 AY515512.1 27816 ........T................................................... 27875 AY390556.1 27839 ........T................................................... 27898 AY304489.1 6680 ........T................................................... 6739 AY304488.1 27824 ........T................................................... 27883 AY304487.1 6674 ........T................................................... 6733 AY304486.1 27824 ........T................................................... 27883 AY278489.2 27823 ........T................................................... 27882 AY686864.1 27798 ........T................................................... 27857 AY613949.1 27789 ........T................................................... 27848 AY613948.1 27789 ........T................................................... 27848 AY572035.1 27791 ........T................................................... 27850 AY572034.1 27813 ........T................................................... 27872 AY545915.1 27807 ........T................................................... 27866 AY686863.1 27788 ........T................................................... 27847 AY613947.1 27789 ........T.....................T............................. 27848 AY545914.1 27816 ........T................................................... 27875 AY572038.1 27768 ........T.....................T............................. 27827 AY568539.1 27789 ........T.....................T............................. 27848 AY613950.1 27789 ........T................................................... 27848 AY545917.1 27803 ........T................................................... 27862 FJ959407.1 27778 ........T.....................T............................. 27837 AY545919.1 27818 ........T.....................T............................. 27877 AY545918.1 27805 ........T.....................T............................. 27864 AY545916.1 27805 ........T.....................T............................. 27864 Consensus CAGCGCTGTGCATCTAATAAACCTCATGTGCTTGAAGATCCTTGTCCTACTGGTTACCAA Mutated C T DownloadNextPreviousFirst Range Query range 3: 121 to 180 Query 121 CCTGAATGGAATATAAGGTACAACACTACGGGTAATACTTATAGCACTGCTTGGCTTTGT 180 AY394995.1 27884 ............................................................ 27943 AY394994.1 27884 ............................G............................... 27943 AY394986.1 27848 ............................G............................... 27907 AY394985.1 27649 ............................G............................... 27708 AY394984.1 27852 ............................G............................... 27911 AY394981.1 27845 ............................G............................... 27904 AY515512.1 27876 .......................A....G............................... 27935 AY390556.1 27899 ............................G............................... 27958 AY304489.1 6740 ............................G............................... 6799 AY304488.1 27884 ............................G............................... 27943 AY304487.1 6734 ............................G............................... 6793 AY304486.1 27884 ............................G............................... 27943 AY278489.2 27883 ............................G............................... 27942 AY686864.1 27858 .......................A....G............................... 27917 AY613949.1 27849 .......................A....G............................... 27908 AY613948.1 27849 .......................A....G............................... 27908 AY572035.1 27851 .......................A....G............................... 27910 AY572034.1 27873 .......................A....G............................... 27932 AY545915.1 27867 .......................A....G............................... 27926 AY686863.1 27848 .......................A....G............................... 27907 AY613947.1 27849 .......................A....G............................... 27908 AY545914.1 27876 .......................A....G............................... 27935 AY572038.1 27828 .......................A....G............................... 27887 AY568539.1 27849 .......................A....G............................... 27908 AY613950.1 27849 ..........--...........A....G............................... 27906 AY545917.1 27863 ..........--...........A....G............................... 27920 FJ959407.1 27838 .......................A....G............................... 27897 AY545919.1 27878 .......................A....G............................... 27937 AY545918.1 27865 .......................A....G............................... 27924 AY545916.1 27865 .......................A....G............................... 27924 Consensus CCTGAATGGAATATAAGGTACAACACTAGGGGTAATACTTATAGCACTGCTTGGCTTTGT Mutated A C DownloadNextPreviousFirst Range Query range 4: 181 to 240 Query 181 GCTCTAGGAAAGGTTTTACCTTTTCATATATGGCACACTATGGTTCAAACATGCACACCT 240 AY394995.1 27944 ............................................................ 28003 AY394994.1 27944 ............................G............................... 28003 AY394986.1 27908 ............................G............................... 27967 AY394985.1 27709 ............................G............................... 27768 AY394984.1 27912 ............................G............................... 27971 AY394981.1 27905 ............................G............................... 27964 AY515512.1 27936 ............................G............................... 27995 AY390556.1 27959 ............................G............................... 28018 AY304489.1 6800 ............................G............................... 6859 AY304488.1 27944 ............................G............................... 28003 AY304487.1 6794 ............................G............................... 6853 AY304486.1 27944 ............................G............................... 28003 AY278489.2 27943 ............................G............................... 28002 AY686864.1 27918 ............................G............................... 27977 AY613949.1 27909 ............................G............................... 27968 AY613948.1 27909 ............................G............................... 27968 AY572035.1 27911 ............................G............................... 27970 AY572034.1 27933 ............................G............................... 27992 AY545915.1 27927 ............................G............................... 27986 AY686863.1 27908 ............................G............................... 27967 AY613947.1 27909 ............................G............................... 27968 AY545914.1 27936 ............................G............................... 27995 AY572038.1 27888 ............................G............................... 27947 AY568539.1 27909 ............................G............................... 27968 AY613950.1 27907 ............................G............................... 27966 AY545917.1 27921 ............................G............................... 27980 FJ959407.1 27898 ............................G............................... 27957 AY545919.1 27938 ............................G............................... 27997 AY545918.1 27925 ............................G............................... 27984 AY545916.1 27925 ............................G............................... 27984 Consensus GCTCTAGGAAAGGTTTTACCTTTTCATAGATGGCACACTATGGTTCAAACATGCACACCT Mutated T DownloadNextPreviousFirst Range Query range 5: 241 to 300 Query 241 AATGTTACTATCAACTGTCAAGATCCAGCTGGTGGTGCGCTTATAGCTAGGTGTTGGTAC 300 AY394995.1 28004 ............................................................ 28063 AY394994.1 28004 ............................................................ 28063 AY394986.1 27968 ............................................................ 28027 AY394985.1 27769 ............................................................ 27828 AY394984.1 27972 ............................................................ 28031 AY394981.1 27965 ............................................................ 28024 AY515512.1 27996 ............................................................ 28055 AY390556.1 28019 ............................................................ 28078 AY304489.1 6860 ............................................G............... 6919 AY304488.1 28004 ............................................G............... 28063 AY304487.1 6854 ............................................G............... 6913 AY304486.1 28004 ............................................................ 28063 AY278489.2 28003 ............................................................ 28062 AY686864.1 27978 ............................................................ 28037 AY613949.1 27969 ............................................................ 28028 AY613948.1 27969 ............................................................ 28028 AY572035.1 27971 ............................................................ 28030 AY572034.1 27993 ............................................................ 28052 AY545915.1 27987 ............................................................ 28046 AY686863.1 27968 ............................................................ 28027 AY613947.1 27969 ............................................................ 28028 AY545914.1 27996 ............................................................ 28055 AY572038.1 27948 ............................................................ 28007 AY568539.1 27969 ............................................................ 28028 AY613950.1 27967 ............................................................ 28026 AY545917.1 27981 ............................................................ 28040 FJ959407.1 27958 ..........................................-................. 28016 AY545919.1 27998 ..........................................-................. 28056 AY545918.1 27985 ..........................................-................. 28043 AY545916.1 27985 ..........................................-................. 28043 Consensus AATGTTACTATCAACTGTCAAGATCCAGCTGGTGGTGCGCTTATAGCTAGGTGTTGGTAC Mutated G DownloadNextPreviousFirst Range Query range 6: 301 to 360 Query 301 CTTCATGAAGGTCACCAAACTGCTGCATTTATAGACGTACTTGTTGTTTTAAATAAACGA 360 AY394995.1 28064 ............................................................ 28123 AY394994.1 28064 ...............................G............................ 28123 AY394986.1 28028 ...............................G............................ 28087 AY394985.1 27829 ...............................G............................ 27888 AY394984.1 28032 ...............................G............................ 28091 AY394981.1 28025 ...............................G............................ 28084 AY515512.1 28056 ...............................G............................ 28115 AY390556.1 28079 ...............................G.......T.................... 28138 AY304489.1 6920 ...............................G............................ 6979 AY304488.1 28064 ...............................G............................ 28123 AY304487.1 6914 ...............................G............................ 6973 AY304486.1 28064 ...............................G....................C....... 28123 AY278489.2 28063 ...............................G.......T.................... 28122 AY686864.1 28038 ...............................G............................ 28097 AY613949.1 28029 ...............................G............................ 28088 AY613948.1 28029 ...............................G............................ 28088 AY572035.1 28031 ...............................G............................ 28090 AY572034.1 28053 ...............................G............................ 28112 AY545915.1 28047 ...............................G............................ 28106 AY686863.1 28028 ...............................G....................C....... 28087 AY613947.1 28029 ...............................G............................ 28088 AY545914.1 28056 ...............................G....................C....... 28115 AY572038.1 28008 ...............................G....................C....... 28067 AY568539.1 28029 ...............................G....................C....... 28088 AY613950.1 28027 ...............................G............................ 28086 AY545917.1 28041 ...............................G............................ 28100 FJ959407.1 28017 ...............................G....................C....... 28076 AY545919.1 28057 ...............................G....................C....... 28116 AY545918.1 28044 ...............................G....................C....... 28103 AY545916.1 28044 ...............................G....................C....... 28103 Consensus CTTCATGAAGGTCACCAAACTGCTGCATTTAGAGACGTACTTGTTGTTTTAAATAAACGA Mutated T T C DownloadNextPreviousFirst Range Query range 7: 361 to 369 Query 361 ACAAATTAA 369 AY394995.1 28124 ......... 28132 AY394994.1 28124 ......... 28132 AY394986.1 28088 ......... 28096 AY394985.1 27889 ......... 27897 AY394984.1 28092 ......... 28100 AY394981.1 28085 ......... 28093 AY515512.1 28116 ......... 28124 AY390556.1 28139 ......... 28147 AY304489.1 6980 ......... 6988 AY304488.1 28124 ......... 28132 AY304487.1 6974 ......... 6982 AY304486.1 28124 ......... 28132 AY278489.2 28123 ......... 28131 AY686864.1 28098 ......... 28106 AY613949.1 28089 ......... 28097 AY613948.1 28089 ......... 28097 AY572035.1 28091 ......... 28099 AY572034.1 28113 ......... 28121 AY545915.1 28107 ......... 28115 AY686863.1 28088 ......... 28096 AY613947.1 28089 ......... 28097 AY545914.1 28116 ......... 28124 AY572038.1 28068 ......... 28076 AY568539.1 28089 ......... 28097 AY613950.1 28087 ......... 28095 AY545917.1 28101 ......... 28109 FJ959407.1 28077 ......... 28085 AY545919.1 28117 ......... 28125 AY545918.1 28104 ......... 28112 AY545916.1 28104 ......... 28112 Consensus ACAAATTAA Mutated