This file is supplementary table 2 for Ohler et al, Computational analysis of core promoters in the Drosophila genome. It contains log-odds weight matrix descriptions of the binding sites for the 10 identified core promoter motifs. They can be used as-is with the binding site search tool Patser (Hertz and Stormo 1999). ----------------------------------------------------------------------- Motif 1 ----------------------------------------------------------------------- A C G T 6 3 54 -85 46 46 1 -170 -8 -11 -78 56 78 5 -20 -132 -433 124 -337 58 -1492 -1492 210 -540 -1492 -1492 208 -382 -1492 -44 -237 152 -101 187 -617 -540 188 -420 -337 -440 -1492 195 -1492 -165 173 -303 -301 -176 -1492 193 -1492 -145 -316 -95 -459 162 -24 -250 140 -112 ----------------------------------------------------------------------- Motif 2 ----------------------------------------------------------------------- A C G T 93 -90 -31 -51 12 -33 69 -81 3 72 -142 -7 -23 -103 -601 128 187 -1476 -369 -307 -1476 -1476 -1476 188 -1476 208 -1476 -1476 -1476 -1476 211 -1476 195 -1476 -1476 -1476 -184 -1476 -1476 177 145 -1476 -142 -41 42 -90 40 -31 -55 92 -28 -57 39 6 -76 3 ----------------------------------------------------------------------- Motif 3 ----------------------------------------------------------------------- A C G T -53 -27 61 -1 -47 -1 92 -97 -98 68 97 -293 -370 -357 -1462 182 195 -1462 -1462 -1462 -1462 -1462 -1462 188 192 -1462 -1462 -377 158 -1462 -1462 -29 195 -1462 -1462 -1462 166 -1462 -1462 -60 6 -130 117 -129 -127 73 75 -129 -32 62 16 -67 -7 18 61 -105 -19 26 46 -67 ----------------------------------------------------------------------- Motif 4 ----------------------------------------------------------------------- A C G T -17 -64 -138 96 -1517 -1517 -410 186 -1517 192 -542 -144 195 -1517 -1517 -1517 -1517 -1517 198 -175 -1517 -1517 -1517 188 -326 17 -642 137 -199 -47 94 23 -33 45 15 -35 9 1 -29 12 -10 -83 25 36 -60 -192 -25 107 -226 39 -147 102 -193 68 12 14 18 -136 111 -126 ----------------------------------------------------------------------- Motif 5 ----------------------------------------------------------------------- A C G T 76 40 -54 -163 157 -118 -105 -409 115 -130 -286 12 -1361 208 -1361 -1361 190 -488 -1361 -350 -1361 -1361 208 -409 -1361 208 -1361 -1361 -1361 -1361 -1361 188 -1361 -488 207 -409 27 -188 -327 114 -1361 -98 -169 157 -156 29 -105 91 ----------------------------------------------------------------------- Motif 6 ----------------------------------------------------------------------- A C G T 11 -85 -131 86 -179 -120 27 99 -221 -57 -55 120 -379 30 -305 128 -27 -1339 174 -486 -1339 -307 202 -328 -321 -207 -1339 175 194 -466 -1339 -1339 -1339 -1339 -1339 188 -15 -1339 -1339 149 -198 -1339 -1339 178 -479 -1339 -463 185 -133 -57 -205 132 -62 66 -105 34 73 -14 32 -206 ----------------------------------------------------------------------- Motif 7 ----------------------------------------------------------------------- A C G T -35 -137 -76 106 -177 8 7 66 -567 -145 13 126 -177 -8 77 16 -87 84 34 -94 -1427 208 -1427 -1427 195 -1427 -1427 -1427 -97 -115 24 84 -1427 208 -1427 -1427 8 16 -127 42 -1427 208 -1427 -1427 -1427 -102 -1427 170 138 -354 32 -416 23 -137 91 -70 -81 87 -235 46 ----------------------------------------------------------------------- Motif 8 ----------------------------------------------------------------------- A C G T 98 48 -144 -190 -209 -1300 139 27 -1300 77 88 -67 -241 108 -325 65 -95 -95 168 -1300 -1300 -169 200 -1300 -1300 208 -1300 -1300 180 -427 -1300 -167 50 -1300 145 -1300 -241 201 -1300 -1300 -60 -1300 170 -190 -209 158 0 -1300 -109 134 -1300 4 -60 -19 121 -167 -241 137 7 -148 ----------------------------------------------------------------------- Motif 9 ----------------------------------------------------------------------- A C G T -154 163 -112 -193 -27 -72 139 -293 84 -114 -89 16 -27 123 -89 -135 -1245 -1245 203 -235 -186 183 -1245 -161 -385 -1245 208 -1245 67 -140 -270 77 -127 -1245 130 24 -227 198 -1245 -393 -69 -1245 176 -235 -385 -214 185 -161 -86 -1245 -1245 165 -1245 -172 -1245 177 -1245 123 82 -293 ----------------------------------------------------------------------- Motif 10 ----------------------------------------------------------------------- A C G T -1197 201 -222 -1197 -79 -24 148 -1197 195 -1197 -1197 -1197 143 -1197 -22 -145 -1197 208 -1197 -1197 -1197 -7 169 -344 -57 35 118 -1197 171 -1197 -63 -1197 148 -1197 -63 -112 -1197 208 -1197 -1197 -1197 -1197 211 -1197 -57 -7 137 -1197