# List of top-scoring protein chains for t2k.100-30-stride-ebghtl hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.soe.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 3mn1A 189 2.80e-36 3i6bA 180 1.75e-35 3ij5A 211 7.20e-35 2r8eA 188 1.48e-34 2p9jA 162 4.58e-33 1k1eA 180 8.47e-33 c.108.1.5 67995 3e8mA 164 2.81e-29 3mmzA 176 4.34e-28 1rkqA 282 2.71e-25 c.108.1.10 97621 3ewiA 168 3.49e-25 3niwA 279 2.12e-24 3dnpA 290 3.56e-22 1nrwA 288 1.52e-20 c.108.1.10 86128 1nf2A 268 6.57e-20 c.108.1.10 91849 3mpoA 279 1.41e-19 2hf2A 283 1.30e-18 1rloA 271 1.82e-18 c.108.1.10 111864 1rlmA 271 1.89e-18 c.108.1.10 111860 1wr8A 231 4.29e-18 c.108.1.10 114836 1ymqA 261 1.37e-17 c.108.1.10 123707 2rbkA 261 1.52e-17 c.108.1.10 151850 3daoA 283 1.86e-16 1l6rA 227 1.66e-15 c.108.1.10 77768 3fzqA 274 2.47e-15 2b30A 301 6.93e-15 c.108.1.10 127759 1s2oA 244 1.16e-11 c.108.1.10 118846 3gygA 289 1.50e-11 1f5sA 211 1.74e-11 1f5sA c.108.1.4 59656 1j97A 211 1.74e-11 1f5sA c.108.1.4 62753 2voyI 128 1.91e-11 1l7mA 211 2.00e-11 c.108.1.4 73664 2iyeA 263 2.84e-11 3a1eA 287 4.31e-11 3a1dA 287 4.37e-11 2b8eA 273 4.84e-11 c.108.1.7 128068 d.220.1.1 128069 3m1yA 217 3.88e-08 1wpgA 994 5.07e-08 b.82.7.1 114806 c.108.1.7 114807 d.220.1.1 114808 f.33.1.1 114809 2dqsA 995 7.24e-08 1mhsA 920 2.43e-07 i.18.1.1 79130 2zxeA 1028 1.22e-06 3d6jA 225 5.57e-06 2hszA 243 8.61e-06 c.108.1.6 136726 2hi0A 240 5.35e-05 3kdpA 998 1.44e-04 3m9lA 205 1.50e-04 2wm8A 187 8.52e-04 2nyvA 222 1.53e-03 2hoqA 241 1.85e-03 1y8aA 332 2.33e-03 c.108.1.24 145913 2go7A 207 2.81e-03 c.108.1.6 135434 2zosA 249 3.92e-03 3fvvA 232 4.68e-03 2no4A 240 5.19e-03 2ah5A 210 6.06e-03 c.108.1.6 126742 1nnlA 225 6.87e-03 c.108.1.4 85906 2hdoA 209 8.12e-03 c.108.1.6 136345 1xviA 275 1.23e-02 c.108.1.10 116088 1zrnA 232 1.34e-02 c.108.1.1 43323 1wzcA 249 1.64e-02 c.108.1.10 121491 2gfhA 260 1.77e-02 c.108.1.6 135096 1u7pA 164 1.94e-02 c.108.1.17 113095 2fdrA 229 2.77e-02 c.108.1.6 133319 2gmwA 211 4.01e-02 c.108.1.19 147137 1wviA 257 4.47e-02 c.108.1.14 114915 3ddhA 234 4.54e-02 3l8hA 179 5.58e-02 2x4dA 271 5.66e-02 1aq6A 253 7.34e-02 1qq5A c.108.1.1 43331 1qq5A 253 7.63e-02 1qq5A c.108.1.1 43327 1ccwA 137 7.68e-02 1be1 c.23.6.1 31238 1qq7A 253 7.88e-02 1qq5A c.108.1.1 43329 3mc1A 226 8.84e-02 2o2xA 218 9.41e-02 c.108.1.19 148564 3kd3A 219 1.03e-01 3hy0A 441 1.09e-01 2hx1A 284 1.25e-01 2pkeA 251 1.36e-01 1x42A 232 1.41e-01 c.108.1.1 121677 2w4mA 270 1.61e-01 2i6xA 211 1.61e-01 2bdeA 470 1.70e-01 c.108.1.23 128335 2cdnA 201 1.80e-01 c.37.1.1 130289 1rkuA 206 2.11e-01 c.108.1.11 97627 1zs9A 261 2.31e-01 c.108.1.22 125600 2cftA 298 3.01e-01 3jukA 281 3.24e-01 1zd3A 555 3.28e-01 c.108.1.2 124930 c.69.1.11 124931 2g80A 253 3.32e-01 c.108.1.22 134741 2om6A 235 3.39e-01 1fezA 256 3.93e-01 1fezA c.108.1.3 43343 2jerA 389 4.06e-01 d.126.1.6 148019 2b0cA 206 4.11e-01 c.108.1.2 127633 3eprA 264 4.30e-01 2ho4A 259 4.39e-01 2e9yA 316 4.71e-01 2jc9A 555 4.74e-01 3cprA 304 4.91e-01 1szwA 379 5.14e-01 d.265.1.4 99047 2fprA 176 5.24e-01 c.108.1.19 133919 2q88A 257 5.61e-01 2pibA 216 5.74e-01 1vjrA 271 5.75e-01 c.108.1.14 100832 2zf5O 497 5.76e-01 1u02A 239 5.78e-01 c.108.1.15 107538 1lkdA 297 5.78e-01 d.32.1.3 78059 d.32.1.3 78060 3kbbA 216 5.79e-01 1rqlA 267 5.82e-01 c.108.1.3 97750 2r2jA 382 5.84e-01 3l4rA 170 5.85e-01 1swvA 267 5.99e-01 c.108.1.3 112134 2eq9C 41 6.51e-01 1ltqA 301 7.22e-01 c.108.1.9 78208 c.37.1.1 78209 1fp4A 492 7.39e-01 c.92.2.3 76187 3k32A 203 7.52e-01 3i28A 555 7.58e-01 2qvgA 143 7.63e-01 1han 297 7.69e-01 1han 1p4cA 380 7.90e-01 c.1.4.1 94100 3kc2A 352 8.32e-01 2oycA 306 8.39e-01 2fi1A 190 8.50e-01 c.108.1.3 133508 1m1nA 491 8.55e-01 c.92.2.3 78417 1xpjA 126 8.61e-01 c.108.1.18 115739 3hltA 266 9.05e-01 1rdfA 267 9.32e-01 c.108.1.3 104884 2i33A 258 9.57e-01 3kzxA 231 9.59e-01 1ztcA 221 9.73e-01 d.157.1.11 125635 3n7uA 351 9.73e-01 1acc 735 1.13e+00 1acc 1accA 735 1.13e+00 f.11.1.1 43828 3k1aA 491 1.24e+00 1kw3B 292 1.36e+00 d.32.1.3 77549 d.32.1.3 77550 1zjjA 263 1.37e+00 2eklA 313 1.39e+00 1bu6O 501 1.58e+00 1glcG c.55.1.4 33499 c.55.1.4 33500 3lufA 259 1.65e+00 1j3nA 408 1.74e+00 c.95.1.1 84074 c.95.1.1 84075 2c4nA 250 1.81e+00 c.108.1.14 129837 3kl7A 235 1.91e+00 2acaA 189 1.95e+00 d.63.1.2 126545 1be1 137 2.02e+00 1be1 2glfA 450 2.02e+00 3fiqA 157 2.36e+00 1xhfA 123 2.40e+00 c.23.1.1 122003 2iw1A 374 2.43e+00 c.87.1.8 137738 3lq1A 578 2.44e+00 1dxy 333 2.46e+00 1dxy 1dxyA 333 2.46e+00 c.2.1.4 30094 c.23.12.1 31354 2x26A 308 2.47e+00 1ox0A 430 2.52e+00 c.95.1.1 87495 c.95.1.1 87496 3i3wA 443 2.53e+00 2tpsA 227 2.55e+00 2tpsA c.1.3.1 28591 1mqoA 227 3.10e+00 d.157.1.1 103846 2p3eA 420 3.20e+00 2qtxA 71 3.23e+00 3ktwA 109 3.35e+00 2p4zA 284 3.37e+00 1n8vA 112 3.38e+00 a.118.21.1 85457 3fo8D 283 3.58e+00 1cydA 244 3.60e+00 1cydA c.2.1.2 29825 3l5kA 250 3.60e+00 2pr7A 137 3.62e+00 3cgxA 242 3.73e+00 3d8pA 163 3.87e+00 1eo1A 124 3.88e+00 1eo1A c.55.5.1 33739 1akeA 214 3.89e+00 1zin c.37.1.1 31905 g.41.2.1 45185 3giyA 380 3.97e+00 2cxxA 190 4.01e+00 c.37.1.8 131013 3ezwA 526 4.06e+00 1e6mA 128 4.10e+00 3chy c.23.1.1 31039 1g67A 225 4.22e+00 c.1.3.1 60311 2qtdA 105 4.26e+00 1vf1A 229 4.36e+00 3e58A 214 4.36e+00 2zwmA 130 4.37e+00 3fdiA 201 4.49e+00 3dkvA 217 4.53e+00 3hdvA 136 4.67e+00 2bb3A 221 4.72e+00 c.90.1.1 128257 1te2A 226 5.03e+00 c.108.1.6 106792 2yweA 600 5.03e+00 3gedA 247 5.06e+00 2yutA 207 5.16e+00 1xknA 355 5.46e+00 d.126.1.6 115414 2z2vA 365 5.46e+00 2aj2A 208 5.47e+00 d.310.1.1 126840 3a63A 365 5.53e+00 2ftsA 419 5.74e+00 b.85.6.1 134079 b.103.1.1 134080 c.57.1.2 134081 1f3yA 165 5.75e+00 d.113.1.1 59635 1xhlA 297 5.85e+00 c.2.1.2 109591 2hcfA 234 5.85e+00 c.108.1.6 136333 2znmA 195 5.94e+00 3be4A 217 6.08e+00 1jrmA 104 6.18e+00 d.206.1.1 67136 1jbeA 128 6.20e+00 3chy c.23.1.1 62845 3hvdA 548 6.38e+00 1lpbB 449 6.39e+00 1gpl b.12.1.2 23643 c.69.1.19 34791 1zxiB 809 6.44e+00 d.41.1.1 125774 d.133.1.1 125775 1n62B 809 6.49e+00 d.41.1.1 80092 d.133.1.1 80093 2klaA 106 6.51e+00 3cnhA 200 6.67e+00 3chy 128 6.68e+00 3chy 2zeqA 78 6.76e+00 d.15.1.1 154405 1id1A 153 6.82e+00 1id1A c.2.1.9 62286 3k2gA 364 6.82e+00 3abiA 365 6.84e+00 3cqyA 370 6.87e+00 2feaA 236 7.08e+00 c.108.1.20 133327 3cm0A 186 7.10e+00 1jj2R 84 7.14e+00 1ffkP d.12.1.1 63103 3jsyA 213 7.15e+00 2z2iA 191 7.16e+00 3foaA 510 7.17e+00 2yy8A 201 7.19e+00 3e4rA 324 7.55e+00 1x9mA 698 7.68e+00 c.55.3.5 114999 e.8.1.1 115000 3ed3A 298 7.70e+00 1mb3A 124 7.87e+00 c.23.1.1 78907 2ojpA 292 8.12e+00 3be6A 297 8.27e+00 3kzfA 317 8.57e+00 2cu3A 64 8.58e+00 d.15.3.2 146428 2hafA 211 8.93e+00 d.310.1.1 136286 3fm8A 124 8.99e+00 2blnA 305 9.01e+00 b.46.1.1 128734 c.65.1.1 128735 3grnA 153 9.04e+00 2we5A 310 9.08e+00 3dl0A 216 9.33e+00 1wmaA 276 9.45e+00 c.2.1.2 121042 2bwjA 199 9.49e+00 1l1qA 186 9.58e+00 c.61.1.1 77653 2cukA 311 9.72e+00 3crnA 132 9.74e+00 1p3jA 217 9.81e+00 c.37.1.1 94022 g.41.2.1 94023 2o1sA 621 9.84e+00 2zayA 147 9.95e+00 1zndA 174 9.98e+00 b.60.1.1 125380 3dgfC 122 1.01e+01 3dvxA 196 1.01e+01 1lf7A 182 1.02e+01 b.60.1.1 73878 1rfmA 344 1.03e+01 c.122.1.1 97385 2qh5A 308 1.03e+01 1whzA 70 1.05e+01 d.50.3.2 114656 1i0dA 332 1.06e+01 1pscA c.1.9.3 61487 3mmpF 589 1.06e+01 3dw8B 447 1.07e+01 2eu8A 216 1.07e+01 2ef0A 301 1.07e+01 3ecsA 315 1.08e+01 2yxbA 161 1.10e+01 1zmaA 118 1.11e+01 c.47.1.1 125354 1r6dA 337 1.11e+01 c.2.1.2 97148 2v94A 107 1.15e+01 d.12.1.3 152795 2c95A 196 1.17e+01 2kvrA 130 1.17e+01 1ebfA 358 1.20e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 2ejxA 139 1.21e+01 2hlvA 160 1.21e+01 3i3yA 299 1.22e+01 2ra4A 76 1.23e+01 3l6sA 485 1.23e+01 1q7gA 359 1.24e+01 c.2.1.3 96038 d.81.1.2 96039 3lqnA 150 1.24e+01 3iesA 551 1.26e+01 2ffcA 353 1.27e+01 c.1.2.3 133378 2fssA 365 1.27e+01 1qguA 478 1.28e+01 1qguA c.92.2.3 35625 1qh8A 478 1.29e+01 1qguA c.92.2.3 35633 1lvk 762 1.31e+01 1lvk 2wu9A 442 1.31e+01 2q82A 129 1.32e+01 1jv4A 162 1.33e+01 b.60.1.1 67343 1h1lA 481 1.36e+01 c.92.2.3 70851 1t7pA 698 1.36e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 2az4A 429 1.37e+01 d.157.1.10 127597 1i06A 180 1.37e+01 1mup b.60.1.1 27131 3llxA 376 1.37e+01 1a4iA 301 1.41e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1pgtA 210 1.42e+01 1pgtA a.45.1.1 17515 c.47.1.5 32809 2dhoA 235 1.43e+01 3g8dA 444 1.43e+01 1si7A 369 1.43e+01 d.265.1.4 98883 1e4yA 214 1.44e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1qy1A 174 1.45e+01 b.60.1.1 96568 1iyxA 432 1.48e+01 c.1.11.1 83815 d.54.1.1 83816 3gnhA 403 1.49e+01 1ii2A 524 1.50e+01 c.91.1.1 66146 c.109.1.1 66147 2o4cA 380 1.50e+01 3ikhA 299 1.52e+01 2oz8A 389 1.52e+01 2pt2A 334 1.53e+01 1ta0A 197 1.53e+01 c.108.1.16 106729 2fueA 262 1.54e+01 c.108.1.10 134119 1aorA 605 1.55e+01 1b25A a.110.1.1 19042 d.152.1.1 41794 3ct7A 231 1.57e+01 3ctlA 231 1.57e+01 1ebuA 358 1.58e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1wn1A 356 1.58e+01 1ni5A 433 1.58e+01 b.153.1.2 111592 c.26.2.5 80533 d.229.1.1 111593 3h7eA 237 1.60e+01 1glcG 501 1.61e+01 1glcG c.55.1.4 33519 c.55.1.4 33520 1rmwA 212 1.63e+01 2ganA 190 1.63e+01 d.108.1.1 134889 1lngA 87 1.64e+01 d.201.1.1 74045 2wuaA 440 1.66e+01 3dnmA 336 1.66e+01 1g62A 224 1.66e+01 1g61A d.126.1.1 41128 2akaA 776 1.67e+01 3k2mA 112 1.67e+01 1ecxA 384 1.71e+01 1ecxA c.67.1.3 34431 2g6bA 180 1.71e+01 c.37.1.8 134701 1dd3A 128 1.72e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1yt5A 258 1.73e+01 2gn0A 342 1.74e+01 2yv5A 302 1.74e+01 2ebdA 309 1.76e+01 2icjA 233 1.77e+01 3et4A 255 1.77e+01 3kucB 81 1.78e+01 1yb0A 159 1.78e+01 d.118.1.1 122865 2eq7C 40 1.79e+01 1eg5A 384 1.80e+01 1ecxA c.67.1.3 34429 3ebvA 302 1.80e+01 2g45A 129 1.80e+01 g.44.1.5 145182 3dxfA 299 1.80e+01 2pth 193 1.81e+01 2pth 2pthA 193 1.81e+01 c.56.3.1 33793 1yioA 208 1.81e+01 a.4.6.2 123326 c.23.1.1 123327 2rauA 354 1.82e+01 2wm3A 299 1.82e+01 1u8tA 129 1.85e+01 c.23.1.1 113192 1vicA 262 1.88e+01 c.68.1.13 100756 2bgxA 261 1.89e+01 a.20.1.1 128504 d.118.1.1 128505 2vc7A 314 1.89e+01 3d2yA 261 1.89e+01 1b7bA 310 1.89e+01 1b7bA c.73.1.1 34963 1dhpA 292 1.90e+01 1dhpA c.1.10.1 29097 3kvtA 115 1.91e+01 d.42.1.2 38642 2bosA 68 1.92e+01 2bosA b.40.2.1 25025 2f82A 450 1.92e+01 2g3mA 693 1.92e+01 2a3nA 355 1.93e+01 3hu5A 204 1.93e+01 1oxkB 134 1.96e+01 c.23.1.1 93691 2hkeA 380 1.98e+01 3cduA 468 1.99e+01 1uklC 61 2.00e+01 a.38.1.1 99495 3gl9A 122 2.03e+01 2a2pA 129 2.03e+01 c.47.1.23 126051 1guaB 81 2.03e+01 1c1yB d.15.1.5 37619 1z2zA 446 2.06e+01 3k31A 296 2.06e+01 1et0A 269 2.10e+01 1et0A e.17.1.1 43289 2amyA 246 2.12e+01 c.108.1.10 127026 1zwxA 301 2.13e+01 d.151.1.3 125752 1v84A 253 2.14e+01 c.68.1.7 108419 3h1tA 590 2.16e+01 1i2kA 269 2.17e+01 e.17.1.1 90661 1nddA 76 2.19e+01 1ubi d.15.1.1 37599 1eywA 331 2.19e+01 1pscA c.1.9.3 29057 3ed5A 238 2.19e+01 1c1yB 77 2.20e+01 1c1yB d.15.1.5 37618 3c86A 328 2.20e+01 2d2jA 329 2.21e+01 c.1.9.3 131175 1o6dA 163 2.25e+01 c.116.1.3 92567 1dxkA 227 2.27e+01 1a7tA d.157.1.1 42036 1xseA 295 2.27e+01 c.2.1.2 115925 1wl4A 397 2.27e+01 2uzhA 165 2.28e+01 2gfgA 193 2.28e+01 1akyA 220 2.29e+01 c.37.1.1 31896 g.41.2.1 45197 2rgxA 206 2.30e+01 2w0rA 144 2.32e+01 1xkqA 280 2.33e+01 c.2.1.2 115417 1t8kA 77 2.33e+01 a.28.1.1 106666 3f0iA 119 2.34e+01 2coiA 386 2.36e+01 2yw3A 207 2.38e+01 1k07A 263 2.38e+01 d.157.1.1 77218 1lkxA 697 2.39e+01 c.37.1.9 73981 1l8qA 324 2.40e+01 a.4.12.2 77809 c.37.1.20 77810 2bkrB 77 2.41e+01 d.15.1.1 128711 3mahA 157 2.41e+01 2j07A 420 2.42e+01 a.99.1.1 137891 c.28.1.1 137892 2aawA 222 2.44e+01 a.45.1.1 126496 c.47.1.5 126497 3gtiA 337 2.44e+01 2b82A 211 2.44e+01 c.108.1.12 128057 1l0iA 78 2.45e+01 a.28.1.1 77643 1mvoA 136 2.45e+01 c.23.1.1 79513 1fg7A 356 2.47e+01 1gewA c.67.1.1 59819 2f2sA 406 2.49e+01 2ieeA 271 2.49e+01 1thx 115 2.49e+01 1thx 1thxA 115 2.49e+01 c.47.1.1 32732 1aqwA 209 2.51e+01 1pgtA a.45.1.1 17517 c.47.1.5 32811 1lbkA 208 2.53e+01 a.45.1.1 73809 c.47.1.5 73810 1d7uA 433 2.54e+01 2dkb c.67.1.4 34439 1d0yA 761 2.54e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1ydeA 270 2.55e+01 c.2.1.2 122980 1lzlA 323 2.55e+01 c.69.1.2 78306 3gu1A 337 2.56e+01 1dcfA 136 2.60e+01 1dcfA c.23.1.2 31124 1tqjA 230 2.61e+01 c.1.2.2 107228 2hhlA 195 2.65e+01 1zin 217 2.67e+01 1zin 1zinA 217 2.67e+01 c.37.1.1 31915 g.41.2.1 45178 2wirA 313 2.73e+01 1gewA 356 2.76e+01 1gewA c.67.1.1 60470 2dri 271 2.77e+01 2dri 2driA 271 2.77e+01 c.93.1.1 35637 2c7yA 404 2.80e+01 2uubB 256 2.81e+01 c.23.15.1 139932 2za0A 184 2.83e+01 1dl5A 317 2.85e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 17gsA 210 2.86e+01 1pgtA a.45.1.1 17524 c.47.1.5 32818 2bduA 297 2.90e+01 c.108.1.21 146135 1oeyA 83 2.91e+01 d.15.2.2 92800 2ob5A 153 2.93e+01 c.133.1.1 148714 3hmaA 157 2.94e+01 1pscA 365 2.96e+01 1pscA c.1.9.3 29058 3f6pA 120 2.98e+01 1bu8A 452 3.00e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1r7lA 110 3.01e+01 d.277.1.1 104837 2e7jA 371 3.01e+01 c.67.1.9 146704 3h8vA 292 3.02e+01 3ir1A 245 3.03e+01 3kffA 162 3.04e+01 1nktA 922 3.06e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 2j66A 428 3.06e+01 3m7vA 413 3.06e+01 1bd3A 243 3.09e+01 1bd3A c.61.1.1 34098 2dkb 433 3.10e+01 2dkb 1taq 832 3.10e+01 1taq 2j6iA 364 3.11e+01 1qo7A 394 3.13e+01 1qo7A c.69.1.11 34697 1wwzA 159 3.14e+01 d.108.1.1 121380 3l0bA 184 3.16e+01 1isiA 265 3.18e+01 c.23.14.3 71394 1zodA 433 3.18e+01 c.67.1.4 125437 2a2rA 210 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