PFRMAT AL TARGET T0297 SP1450, Streptococcus pneumoniae TIGR4, 211 res AUTHOR SAM-T99 METHOD This pairwise alignment was produced using the SAM-T99 method METHOD METHOD ------------- Citations (SAM, SAM-T99, HMMs) ----------------- METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: METHOD Extension and analysis of the basic method, CABIOS 12:95-107, 1996. METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting METHOD remote protein homologies, Bioinformatics 14(10):846-856, 1999. METHOD A. Krogh et al., Hidden Markov models in computational biology: METHOD Applications to protein modeling, JMB 235:1501-1531, Feb 1994. METHOD ------------- MODEL 4 PARENT 1bwq Q 4 P 11 L 5 T 12 L 6 P 13 E 7 V 14 N 8 Q 15 W 9 D 16 L 10 V 17 L 11 Q 18 K 12 G 19 E 13 D 20 Q 14 G 21 E 15 R 22 K 16 W 23 I 17 M 24 Q 18 S 25 T 19 L 26 K 20 H 27 Y 21 H 28 R 22 R 29 H 23 F 30 L 24 V 31 N 25 A 32 H 26 D 33 I 27 S 34 S 28 K 35 V 29 D 36 V 30 K 37 E 31 E 38 P 32 P 39 N 33 E 40 I 34 V 41 L 35 V 42 F 36 F 43 I 37 I 44 G 38 G 45 D 39 D 46 S 40 S 47 I 41 L 48 V 42 V 49 E 43 Q 50 Y 44 Q 54 Y 45 C 55 P 46 E 56 L 47 I 57 Q 48 W 58 E 49 R 59 L 50 E 60 F 51 L 61 G 52 F 62 T 53 S 63 S 54 P 64 K 55 L 65 T 56 H 66 I 57 A 67 V 58 L 68 N 59 N 69 R 60 F 70 G 61 G 71 I 62 I 72 R 63 G 73 G 64 G 74 Y 65 D 75 Q 66 S 76 T 67 T 77 G 68 Q 78 L 69 H 79 L 70 V 80 L 71 L 81 E 72 W 82 N 73 R 83 L 74 L 84 D 75 E 85 A 76 N 86 H 77 G 87 L 78 E 88 Y 79 L 89 G 80 E 90 G 81 H 91 A 82 R 93 V 83 P 94 D 84 K 95 K 85 I 96 I 86 V 97 F 87 V 98 L 88 V 99 L 89 W 100 I 90 V 101 G 91 G 102 T 92 T 103 N 93 N 104 D 94 N 105 K 97 H 106 D 98 G 107 V 99 H 108 P 100 T 109 V 101 A 110 N 102 E 111 E 103 Q 112 A 104 V 113 L 105 T 114 N 106 G 115 N 107 G 116 L 108 I 117 E 109 K 118 A 110 A 119 I 111 I 120 I 112 V 121 Q 113 Q 122 S 114 L 123 V 115 V 124 A 116 N 125 R 117 E 126 D 118 R 127 Y 119 Q 128 P 120 P 129 L 121 Q 130 T 122 A 131 E 123 R 132 I 124 V 133 K 125 V 134 L 126 V 135 L 127 L 136 S 128 G 137 I 129 L 138 L 130 L 139 P 131 P 140 V 132 R 141 N 133 G 142 E 134 Q 143 R 135 H 144 E 136 P 145 I 144 N 146 R 145 P 147 S 146 L 148 N 147 R 149 E 148 E 150 K 149 K 151 I 150 N 152 Q 151 R 153 N 152 R 154 W 153 V 155 N 154 N 156 Q 155 E 157 A 156 L 158 Y 157 V 159 Q 158 R 160 E 159 A 161 L 160 A 162 A 161 L 163 S 162 A 164 A 163 G 165 Y 164 H 166 M 165 P 167 Q 166 R 168 V 167 A 169 E 168 H 170 F 169 F 171 V 170 L 172 P 171 D 173 V 172 A 174 F 173 D 175 D 174 P 176 C 175 G 177 L 176 F 178 T 177 V 179 D 178 H 180 Q 179 S 181 A 180 D 182 G 181 G 183 Q 182 T 184 L 183 I 185 K 184 S 186 K 185 H 187 E 186 H 188 Y 187 D 189 T 188 M 190 T 189 Y 191 D 190 D 192 G 191 Y 193 L 192 A 194 H 193 H 195 L 194 L 196 S 195 S 197 I 196 R 198 A 197 L 199 G 198 G 200 Y 199 Y 201 Q 200 T 202 A 201 P 203 L 202 V 204 S 203 C 205 K 204 R 206 S 205 A 207 L 206 L 208 K 207 H 209 D 208 S 210 Y 209 L 211 L 210 L 212 TER END