PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1ejeA S 16 M 7 C 17 M 8 D 18 S 9 F 19 M 10 A 20 D 11 M 21 F 12 K 22 E 13 K 23 D 14 M 24 F 15 D 25 P 16 L 26 V 17 R 27 E 18 K 28 S 19 A 29 A 20 F 30 H 21 T 31 R 22 L 32 I 23 I 33 L 24 E 34 T 25 P 35 P 26 G 36 R 27 P 37 P 28 V 38 T 29 T 39 V 30 L 40 M 31 V 41 V 32 T 42 T 33 T 43 T 34 S 44 D 36 A 45 E 37 G 46 E 38 G 47 G 39 T 48 N 40 N 49 I 41 N 50 N 42 V 51 A 43 M 52 A 44 T 53 P 45 I 54 F 46 S 55 S 47 W 56 F 48 T 57 T 49 M 58 M 50 A 59 P 51 V 60 V 52 D 61 S 53 F 62 I 54 T 63 D 55 P 64 P 56 K 65 P 57 L 66 V 59 A 67 A 60 I 68 F 61 T 69 A 62 T 70 S 63 G 71 A 64 P 72 P 65 W 73 D 66 N 74 H 67 F 75 H 68 S 76 T 69 Y 77 A 70 K 78 R 71 A 79 N 72 L 80 I 73 T 81 E 74 K 82 S 75 S 83 T 76 R 84 H 77 E 85 E 78 C 86 F 79 V 87 V 80 I 88 I 81 A 89 N 82 I 90 I 83 P 91 T 84 T 92 P 85 V 93 A 86 D 94 D 87 L 95 I 88 L 96 I 89 D 97 E 90 K 98 R 91 V 99 M 92 V 100 W 93 G 101 V 94 V 102 T 95 G 103 A 96 T 104 R 97 C 105 D 98 S 106 I 99 G 107 P 100 K 108 A 101 D 109 G 102 T 110 E 103 D 111 N 104 K 112 E 105 F 113 L 106 D 114 E 107 T 115 A 108 F 116 A 109 R 117 G 110 L 118 L 111 T 119 A 112 P 120 W 113 I 121 T 114 K 122 S 115 G 123 S 116 K 124 R 117 Y 125 R 118 V 126 V 119 E 127 K 120 A 128 P 121 P 129 P 122 L 130 R 123 I 131 I 124 K 132 V 125 E 133 E 126 C 134 A 127 V 135 P 128 A 136 G 129 N 137 H 130 I 138 L 131 E 139 E 132 C 140 C 133 K 141 E 134 V 142 L 135 V 143 L 136 D 144 R 137 I 145 M 138 I 146 F 139 K 147 E 140 K 148 D 143 H 149 H 144 D 150 N 145 I 151 L 146 V 152 I 147 V 153 T 148 L 154 G 149 E 155 S 150 G 156 V 151 V 157 V 152 A 158 S 153 A 159 A 154 Y 160 S 155 F 161 V 156 D 162 R 157 T 163 S 158 S 164 G 159 R 165 A 160 K 166 V 161 E 167 K 162 K 168 E 163 R 169 K 172 T 170 P 173 L 171 V 174 H 172 L 175 A 173 H 176 V 174 V 177 G 175 G 178 D 176 G 179 G 177 N 180 T 178 K 181 F 179 F 182 V 180 V 183 V 181 V 184 D 182 G 185 G 183 D 186 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1uscB F 30 F 13 T 31 Y 14 L 32 H 15 I 33 Y 16 E 34 Y 17 P 35 P 18 G 36 G 19 P 37 V 20 V 38 P 21 T 39 A 22 L 40 V 23 V 41 V 24 T 42 G 25 T 43 V 26 S 44 R 27 A 45 V 28 G 46 E 29 G 47 E 30 T 48 R 31 N 49 V 32 N 50 N 33 V 51 F 34 M 52 C 35 T 53 P 36 I 54 A 37 S 55 V 38 W 56 W 39 T 57 N 40 M 58 T 41 A 59 G 42 V 60 L 43 D 61 S 44 F 62 A 45 T 63 D 46 P 64 P 47 K 65 P 48 L 66 F 50 A 67 G 51 I 68 V 52 T 69 S 53 T 70 I 54 G 71 S 55 P 72 P 56 W 73 K 57 N 74 R 58 F 75 F 59 S 76 T 60 Y 77 H 61 K 78 G 62 A 79 L 63 L 80 L 64 T 81 L 65 K 82 K 66 S 83 A 67 R 84 R 68 E 85 R 69 C 86 F 70 V 87 S 71 I 88 A 72 A 89 S 73 I 90 F 74 P 91 H 75 T 92 P 76 V 93 F 77 D 94 G 78 L 95 Q 79 L 96 K 80 D 97 D 81 K 98 L 82 V 99 V 83 V 100 H 84 G 101 W 85 V 102 L 86 G 103 G 87 T 104 S 88 C 105 H 89 S 106 S 90 G 107 G 91 K 108 R 92 D 109 E 93 T 110 V 94 D 111 D 95 K 112 K 96 R 117 G 97 L 118 Q 98 T 119 A 99 P 120 P 100 I 121 H 101 K 122 F 102 G 123 L 103 K 124 G 104 Y 125 H 105 V 126 T 106 E 127 G 107 A 128 V 108 P 129 P 109 L 130 I 110 I 131 L 111 K 132 E 112 E 133 G 113 C 134 A 114 V 135 Y 115 A 136 A 116 N 137 A 117 I 138 Y 118 E 139 E 119 C 140 L 120 K 141 E 121 V 142 L 122 V 143 L 123 D 144 E 124 I 145 V 125 I 146 H 126 K 147 T 127 K 148 D 130 H 149 H 131 D 150 D 132 I 151 L 133 V 152 F 134 V 153 V 135 L 154 G 136 E 155 R 137 G 156 V 138 V 157 V 139 A 158 A 140 A 159 V 141 Y 160 W 142 F 161 E 143 D 162 E 144 T 163 E 145 S 164 G 146 R 165 L 147 K 166 L 148 E 167 D 149 K 168 E 150 R 169 L 158 T 170 A 159 L 171 L 160 H 172 L 161 A 173 Y 162 V 174 Y 163 G 175 G 164 D 176 K 165 G 177 G 166 T 178 L 167 F 179 Y 168 V 180 G 169 V 181 R 170 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1usfA F 30 F 13 T 31 Y 14 L 32 H 15 I 33 Y 16 E 34 Y 17 P 35 P 18 G 36 G 19 P 37 V 20 V 38 P 21 T 39 A 22 L 40 V 23 V 41 V 24 T 42 G 25 T 43 V 26 S 44 R 27 A 45 V 28 G 46 E 29 G 47 E 30 T 48 R 31 N 49 V 32 N 50 N 33 V 51 F 34 M 52 C 35 T 53 P 36 I 54 A 37 S 55 V 38 W 56 W 39 T 57 N 40 M 58 T 41 A 59 G 42 V 60 L 43 D 61 S 44 F 62 A 45 T 63 D 46 P 64 P 47 K 65 P 48 L 66 F 50 A 67 G 51 I 68 V 52 T 69 S 53 T 70 I 54 G 71 S 55 P 72 P 56 W 73 K 57 N 74 R 58 F 75 F 59 S 76 T 60 Y 77 H 61 K 78 G 62 A 79 L 63 L 80 L 64 T 81 L 65 K 82 K 66 S 83 A 67 R 84 R 68 E 85 R 69 C 86 F 70 V 87 S 71 I 88 A 72 A 89 S 73 I 90 F 74 P 91 H 75 T 92 P 76 V 93 F 77 D 94 G 78 L 95 Q 79 L 96 K 80 D 97 D 81 K 98 L 82 V 99 V 83 V 100 H 84 G 101 W 85 V 102 L 86 G 103 G 87 T 104 S 88 C 105 H 89 S 106 S 90 G 107 G 91 K 108 R 92 D 109 E 93 T 110 V 94 D 111 D 95 K 112 K 96 R 117 G 97 L 118 Q 98 T 119 A 99 P 120 P 100 I 121 H 101 K 122 F 102 G 123 L 103 K 124 G 104 Y 125 H 105 V 126 T 106 E 127 G 107 A 128 V 108 P 129 P 109 L 130 I 110 I 131 L 111 K 132 E 112 E 133 G 113 C 134 A 114 V 135 Y 115 A 136 A 116 N 137 A 117 I 138 Y 118 E 139 E 119 C 140 L 120 K 141 E 121 V 142 L 122 V 143 L 123 D 144 E 124 I 145 V 125 I 146 H 126 K 147 T 127 K 148 D 130 H 149 H 131 D 150 D 132 I 151 L 133 V 152 F 134 V 153 V 135 L 154 G 136 E 155 R 137 G 156 V 138 V 157 V 139 A 158 A 140 A 159 V 141 Y 160 W 142 F 161 E 143 D 162 E 144 T 163 E 145 S 164 G 146 R 165 L 147 K 166 L 148 E 167 D 149 K 168 E 150 R 169 L 158 T 170 A 159 L 171 L 160 H 172 L 161 A 173 Y 162 V 174 Y 163 G 175 G 164 D 176 K 165 G 177 G 166 T 178 L 167 F 179 Y 168 V 180 G 169 V 181 R 170 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1usfB F 30 F 13 T 31 Y 14 L 32 H 15 I 33 Y 16 E 34 Y 17 P 35 P 18 G 36 G 19 P 37 V 20 V 38 P 21 T 39 A 22 L 40 V 23 V 41 V 24 T 42 G 25 T 43 V 26 S 44 R 27 A 45 V 28 G 46 E 29 G 47 E 30 T 48 R 31 N 49 V 32 N 50 N 33 V 51 F 34 M 52 C 35 T 53 P 36 I 54 A 37 S 55 V 38 W 56 W 39 T 57 N 40 M 58 T 41 A 59 G 42 V 60 L 43 D 61 S 44 F 62 A 45 T 63 D 46 P 64 P 47 K 65 P 48 L 66 F 50 A 67 G 51 I 68 V 52 T 69 S 53 T 70 I 54 G 71 S 55 P 72 P 56 W 73 K 57 N 74 R 58 F 75 F 59 S 76 T 60 Y 77 H 61 K 78 G 62 A 79 L 63 L 80 L 64 T 81 L 65 K 82 K 66 S 83 A 67 R 84 R 68 E 85 R 69 C 86 F 70 V 87 S 71 I 88 A 72 A 89 S 73 I 90 F 74 P 91 H 75 T 92 P 76 V 93 F 77 D 94 G 78 L 95 Q 79 L 96 K 80 D 97 D 81 K 98 L 82 V 99 V 83 V 100 H 84 G 101 W 85 V 102 L 86 G 103 G 87 T 104 S 88 C 105 H 89 S 106 S 90 G 107 G 91 K 108 R 92 D 109 E 93 T 110 V 94 D 111 D 95 K 112 K 96 R 117 G 97 L 118 Q 98 T 119 A 99 P 120 P 100 I 121 H 101 K 122 F 102 G 123 L 103 K 124 G 104 Y 125 H 105 V 126 T 106 E 127 G 107 A 128 V 108 P 129 P 109 L 130 I 110 I 131 L 111 K 132 E 112 E 133 G 113 C 134 A 114 V 135 Y 115 A 136 A 116 N 137 A 117 I 138 Y 118 E 139 E 119 C 140 L 120 K 141 E 121 V 142 L 122 V 143 L 123 D 144 E 124 I 145 V 125 I 146 H 126 K 147 T 127 K 148 D 130 H 149 H 131 D 150 D 132 I 151 L 133 V 152 F 134 V 153 V 135 L 154 G 136 E 155 R 137 G 156 V 138 V 157 V 139 A 158 A 140 A 159 V 141 Y 160 W 142 F 161 E 143 D 162 E 144 T 163 E 145 S 164 G 146 R 165 L 147 K 166 L 148 E 167 D 149 K 168 E 150 R 169 L 158 T 170 A 159 L 171 L 160 H 172 L 161 A 173 Y 162 V 174 Y 163 G 175 G 164 D 176 K 165 G 177 G 166 T 178 L 167 F 179 Y 168 V 180 G 169 V 181 R 170 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1uscA F 30 F 13 T 31 Y 14 L 32 H 15 I 33 Y 16 E 34 Y 17 P 35 P 18 G 36 G 19 P 37 V 20 V 38 P 21 T 39 A 22 L 40 V 23 V 41 V 24 T 42 G 25 T 43 V 26 S 44 R 27 A 45 V 28 G 46 E 29 G 47 E 30 T 48 R 31 N 49 V 32 N 50 N 33 V 51 F 34 M 52 C 35 T 53 P 36 I 54 A 37 S 55 V 38 W 56 W 39 T 57 N 40 M 58 T 41 A 59 G 42 V 60 L 43 D 61 S 44 F 62 A 45 T 63 D 46 P 64 P 47 K 65 P 48 L 66 F 50 A 67 G 51 I 68 V 52 T 69 S 53 T 70 I 54 G 71 S 55 P 72 P 56 W 73 K 57 N 74 R 58 F 75 F 59 S 76 T 60 Y 77 H 61 K 78 G 62 A 79 L 63 L 80 L 64 T 81 L 65 K 82 K 66 S 83 A 67 R 84 R 68 E 85 R 69 C 86 F 70 V 87 S 71 I 88 A 72 A 89 S 73 I 90 F 74 P 91 H 75 T 92 P 76 V 93 F 77 D 94 G 78 L 95 Q 79 L 96 K 80 D 97 D 81 K 98 L 82 V 99 V 83 V 100 H 84 G 101 W 85 V 102 L 86 G 103 G 87 T 104 S 88 C 105 H 89 S 106 S 90 G 107 G 91 K 108 R 92 D 109 E 93 T 110 V 94 D 111 D 95 K 112 K 96 R 117 G 97 L 118 Q 98 T 119 A 99 P 120 P 100 I 121 H 101 K 122 F 102 G 123 L 103 K 124 G 104 Y 125 H 105 V 126 T 106 E 127 G 107 A 128 V 108 P 129 P 109 L 130 I 110 I 131 L 111 K 132 E 112 E 133 G 113 C 134 A 114 V 135 Y 115 A 136 A 116 N 137 A 117 I 138 Y 118 E 139 E 119 C 140 L 120 K 141 E 121 V 142 L 122 V 143 L 123 D 144 E 124 I 145 V 125 I 146 H 126 K 147 T 127 K 148 D 130 H 149 H 131 D 150 D 132 I 151 L 133 V 152 F 134 V 153 V 135 L 154 G 136 E 155 R 137 G 156 V 138 V 157 V 139 A 158 A 140 A 159 V 141 Y 160 W 142 F 161 E 143 D 162 E 144 T 163 E 145 S 164 G 146 R 165 L 147 K 166 L 148 E 167 D 149 K 168 E 150 R 169 L 158 T 170 A 159 L 171 L 160 H 172 L 161 A 173 Y 162 V 174 Y 163 G 175 G 164 D 176 K 165 G 177 G 166 T 178 L 167 F 179 Y 168 V 180 G 169 V 181 R 170 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1i0rB F 30 A 5 T 31 F 6 L 32 Y 7 I 33 K 8 E 34 I 9 P 35 S 10 G 36 Y 11 P 37 G 12 V 38 L 13 T 39 Y 14 L 40 I 15 V 41 V 16 T 42 T 17 T 43 S 18 S 44 E 19 A 45 S 20 G 46 N 21 G 47 G 22 T 48 R 23 N 49 K 24 N 50 C 25 V 51 G 26 M 52 Q 27 T 53 I 28 I 54 A 29 S 55 N 30 W 56 T 31 T 57 V 32 M 58 F 33 A 59 Q 34 V 60 L 35 D 61 T 36 F 62 S 37 T 63 K 38 P 64 P 39 K 65 V 40 L 66 I 42 A 67 A 43 I 68 V 44 T 69 C 45 T 70 L 46 G 71 N 47 P 72 K 48 W 73 E 49 N 74 N 50 F 75 D 51 S 76 T 52 Y 77 H 53 K 78 N 54 A 79 A 55 L 80 V 56 T 81 K 57 K 82 E 58 S 83 S 59 R 84 G 60 E 85 A 61 C 86 F 62 V 87 G 63 I 88 V 64 A 89 S 65 I 90 V 66 P 91 L 67 T 92 E 68 V 93 L 69 D 94 T 71 L 95 P 72 L 96 M 73 D 97 E 74 K 98 F 75 V 99 I 76 V 100 G 77 G 101 R 78 V 102 F 79 G 103 G 80 T 104 F 81 C 105 R 82 S 106 K 83 G 107 S 84 K 108 S 85 D 109 E 86 T 110 F 87 D 111 E 88 K 112 K 89 F 113 F 90 D 114 D 91 T 115 G 92 F 116 V 93 R 117 E 94 L 118 Y 95 T 119 K 96 P 120 T 97 I 121 G 98 K 122 K 99 G 123 T 100 E 127 G 101 A 128 V 102 P 129 P 103 L 130 L 104 I 131 V 105 K 132 T 106 E 133 Q 107 C 134 A 109 V 135 V 110 A 136 A 111 N 137 V 112 I 138 I 113 E 139 E 114 C 140 A 115 K 141 K 116 V 142 V 117 V 143 V 118 D 144 K 119 I 145 E 120 I 146 C 121 K 147 D 122 K 148 T 125 H 149 H 126 D 150 T 127 I 151 L 128 V 152 F 129 V 153 V 130 L 154 G 131 E 155 E 132 G 156 A 133 V 157 V 134 A 158 D 135 A 159 A 136 Y 160 E 137 F 161 V 138 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1i0sB F 30 A 5 T 31 F 6 L 32 Y 7 I 33 K 8 E 34 I 9 P 35 S 10 G 36 Y 11 P 37 G 12 V 38 L 13 T 39 Y 14 L 40 I 15 V 41 V 16 T 42 T 17 T 43 S 18 S 44 E 19 A 45 S 20 G 46 N 21 G 47 G 22 T 48 R 23 N 49 K 24 N 50 C 25 V 51 G 26 M 52 Q 27 T 53 I 28 I 54 A 29 S 55 N 30 W 56 T 31 T 57 V 32 M 58 F 33 A 59 Q 34 V 60 L 35 D 61 T 36 F 62 S 37 T 63 K 38 P 64 P 39 K 65 V 40 L 66 I 42 A 67 A 43 I 68 V 44 T 69 C 45 T 70 L 46 G 71 N 47 P 72 K 48 W 73 E 49 N 74 N 50 F 75 D 51 S 76 T 52 Y 77 H 53 K 78 N 54 A 79 A 55 L 80 V 56 T 81 K 57 K 82 E 58 S 83 S 59 R 84 G 60 E 85 A 61 C 86 F 62 V 87 G 63 I 88 V 64 A 89 S 65 I 90 V 66 P 91 L 67 T 92 E 68 V 93 L 69 D 94 T 71 L 95 P 72 L 96 M 73 D 97 E 74 K 98 F 75 V 99 I 76 V 100 G 77 G 101 R 78 V 102 F 79 G 103 G 80 T 104 F 81 C 105 R 82 S 106 K 83 G 107 S 84 K 108 S 85 D 109 E 86 T 110 F 87 D 111 E 88 K 112 K 89 F 113 F 90 D 114 D 91 T 115 G 92 F 116 V 93 R 117 E 94 L 118 Y 95 T 119 K 96 P 120 T 97 I 121 G 98 K 122 K 99 G 123 T 100 E 127 G 101 A 128 V 102 P 129 P 103 L 130 L 104 I 131 V 105 K 132 T 106 E 133 Q 107 C 134 A 109 V 135 V 110 A 136 A 111 N 137 V 112 I 138 I 113 E 139 E 114 C 140 A 115 K 141 K 116 V 142 V 117 V 143 V 118 D 144 K 119 I 145 E 120 I 146 C 121 K 147 D 122 K 148 T 125 H 149 H 126 D 150 T 127 I 151 L 128 V 152 F 129 V 153 V 130 L 154 G 131 E 155 E 132 G 156 A 133 V 157 V 134 A 158 D 135 A 159 A 136 Y 160 E 137 F 161 V 138 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1i0rA F 30 A 5 T 31 F 6 L 32 Y 7 I 33 K 8 E 34 I 9 P 35 S 10 G 36 Y 11 P 37 G 12 V 38 L 13 T 39 Y 14 L 40 I 15 V 41 V 16 T 42 T 17 T 43 S 18 S 44 E 19 A 45 S 20 G 46 N 21 G 47 G 22 T 48 R 23 N 49 K 24 N 50 C 25 V 51 G 26 M 52 Q 27 T 53 I 28 I 54 A 29 S 55 N 30 W 56 T 31 T 57 V 32 M 58 F 33 A 59 Q 34 V 60 L 35 D 61 T 36 F 62 S 37 T 63 K 38 P 64 P 39 K 65 V 40 L 66 I 42 A 67 A 43 I 68 V 44 T 69 C 45 T 70 L 46 G 71 N 47 P 72 K 48 W 73 E 49 N 74 N 50 F 75 D 51 S 76 T 52 Y 77 H 53 K 78 N 54 A 79 A 55 L 80 V 56 T 81 K 57 K 82 E 58 S 83 S 59 R 84 G 60 E 85 A 61 C 86 F 62 V 87 G 63 I 88 V 64 A 89 S 65 I 90 V 66 P 91 L 67 T 92 E 68 V 93 L 69 D 94 T 71 L 95 P 72 L 96 M 73 D 97 E 74 K 98 F 75 V 99 I 76 V 100 G 77 G 101 R 78 V 102 F 79 G 103 G 80 T 104 F 81 C 105 R 82 S 106 K 83 G 107 S 84 K 108 S 85 D 109 E 86 T 110 F 87 D 111 E 88 K 112 K 89 F 113 F 90 D 114 D 91 T 115 G 92 F 116 V 93 R 117 E 94 L 118 Y 95 T 119 K 96 P 120 T 97 I 121 G 98 K 122 K 99 G 123 T 100 E 127 G 101 A 128 V 102 P 129 P 103 L 130 L 104 I 131 V 105 K 132 T 106 E 133 Q 107 C 134 A 109 V 135 V 110 A 136 A 111 N 137 V 112 I 138 I 113 E 139 E 114 C 140 A 115 K 141 K 116 V 142 V 117 V 143 V 118 D 144 K 119 I 145 E 120 I 146 C 121 K 147 D 122 K 148 T 125 H 149 H 126 D 150 T 127 I 151 L 128 V 152 F 129 V 153 V 130 L 154 G 131 E 155 E 132 G 156 A 133 V 157 V 134 A 158 D 135 A 159 A 136 Y 160 E 137 F 161 V 138 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1i0sA F 30 A 5 T 31 F 6 L 32 Y 7 I 33 K 8 E 34 I 9 P 35 S 10 G 36 Y 11 P 37 G 12 V 38 L 13 T 39 Y 14 L 40 I 15 V 41 V 16 T 42 T 17 T 43 S 18 S 44 E 19 A 45 S 20 G 46 N 21 G 47 G 22 T 48 R 23 N 49 K 24 N 50 C 25 V 51 G 26 M 52 Q 27 T 53 I 28 I 54 A 29 S 55 N 30 W 56 T 31 T 57 V 32 M 58 F 33 A 59 Q 34 V 60 L 35 D 61 T 36 F 62 S 37 T 63 K 38 P 64 P 39 K 65 V 40 L 66 I 42 A 67 A 43 I 68 V 44 T 69 C 45 T 70 L 46 G 71 N 47 P 72 K 48 W 73 E 49 N 74 N 50 F 75 D 51 S 76 T 52 Y 77 H 53 K 78 N 54 A 79 A 55 L 80 V 56 T 81 K 57 K 82 E 58 S 83 S 59 R 84 G 60 E 85 A 61 C 86 F 62 V 87 G 63 I 88 V 64 A 89 S 65 I 90 V 66 P 91 L 67 T 92 E 68 V 93 L 69 D 94 T 71 L 95 P 72 L 96 M 73 D 97 E 74 K 98 F 75 V 99 I 76 V 100 G 77 G 101 R 78 V 102 F 79 G 103 G 80 T 104 F 81 C 105 R 82 S 106 K 83 G 107 S 84 K 108 S 85 D 109 E 86 T 110 F 87 D 111 E 88 K 112 K 89 F 113 F 90 D 114 D 91 T 115 G 92 F 116 V 93 R 117 E 94 L 118 Y 95 T 119 K 96 P 120 T 97 I 121 G 98 K 122 K 99 G 123 T 100 E 127 G 101 A 128 V 102 P 129 P 103 L 130 L 104 I 131 V 105 K 132 T 106 E 133 Q 107 C 134 A 109 V 135 V 110 A 136 A 111 N 137 V 112 I 138 I 113 E 139 E 114 C 140 A 115 K 141 K 116 V 142 V 117 V 143 V 118 D 144 K 119 I 145 E 120 I 146 C 121 K 147 D 122 K 148 T 125 H 149 H 126 D 150 T 127 I 151 L 128 V 152 F 129 V 153 V 130 L 154 G 131 E 155 E 132 G 156 A 133 V 157 V 134 A 158 D 135 A 159 A 136 Y 160 E 137 F 161 V 138 TER END PFRMAT AL TARGET seed-seqs-29121.a2m(1) 200 bases, F33836C checksum. AUTHOR UCSC SAM-T99 Web Server 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. MODEL 1 PARENT 1smrA I 68 I 18 T 69 G 19 T 70 I 20 G 71 G 21 P 72 T 22 W 73 P 23 N 74 P 24 F 75 Q 25 S 76 T 26 Y 77 F 27 K 78 K 28 A 79 V 29 L 80 I 30 T 81 F 31 K 82 D 32 S 83 T 33 R 84 G 34 E 85 S 35 C 86 A 36 V 87 N 37 I 88 L 38 A 89 W 39 I 90 V 40 P 91 P 41 T 92 S 42 V 93 T 43 D 94 K 44 L 95 C 45 L 96 S 46 D 97 R 47 K 98 L 47A V 99 Y 47B V 100 L 48 G 101 A 49 V 102 C 50 G 103 G 51 T 104 I 52 C 105 H 53 S 106 S 54 G 107 L 55 K 108 Y 56 D 109 E 57 T 110 Q 86 D 111 D 87 K 112 S 88 F 113 V 89 D 114 T 90 T 115 V 91 F 116 G 92 R 117 G 93 L 118 I 94 T 119 T 95 P 120 V 96 I 121 T 97 K 122 F 101 G 123 G 102 K 124 E 103 Y 125 V 104 V 126 T 105 E 127 Q 106 A 128 L 107 P 129 P 108 L 130 L 109 I 131 I 110 K 132 P 111 E 133 F 112 C 134 M 113 V 135 L 114 A 136 A 115 N 137 Q 116 I 138 F 117 E 139 D 118 C 140 G 119 K 141 V 120 V 142 L 121 V 143 G 122 D 144 M 123 I 145 G 124 I 146 F 125 K 147 P 126 K 148 Q 128 H 149 A 129 D 150 V 130 I 151 G 131 V 152 G 132 V 153 V 133 L 154 T 134 E 155 P 135 G 156 V 136 V 157 F 137 A 158 D 138 A 159 H 139 Y 160 I 140 F 161 L 141 D 162 S 142 T 163 Q 143 S 164 G 144 R 165 V 145 K 166 L 146 E 167 K 147 K 168 E 148 R 169 D 171 T 170 P 172 L 171 Q 173 H 172 H 174 A 173 Y 175 V 174 Q 176 G 175 G 177 D 176 D 178 G 177 F 179 T 178 H 180 F 179 Y 181 V 180 V 182 V 181 S 183 D 182 L 184 G 183 S 185 R 184 K 186 T 185 T 187 TER END