# List of top-scoring protein chains for t2k-100-30-n_sep-scores 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.cse.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 2utgA 70 1.41e+00 1utg a.101.1.1 18814 1utg 70 1.51e+00 1utg a.101.1.1 18813 1f0iA 504 1.64e+00 1f0iA d.136.1.2,d.136.1.2 59566,59567 1wlmA 151 1.82e+00 1tq4A 413 1.86e+00 c.37.1.8 107201 1zcbA 362 2.87e+00 1uekA 275 2.97e+00 d.14.1.5,d.58.26.5 88483,88484 1q5nA 454 3.05e+00 a.127.1.1 95901 1bjz 207 3.31e+00 2tct a.4.1.9,a.121.1.1 16065,19242 1uu1A 335 3.39e+00 c.67.1.1 99993 2f6kA 307 3.53e+00 1rbp 182 3.75e+00 1aqb b.60.1.1 27085 1pzqA 60 3.79e+00 a.34.3.1 95466 1p5zB 263 3.88e+00 c.37.1.1 87815 7reqB 637 3.90e+00 1reqB c.1.19.1,c.23.6.1 29617,31244 1xklA 273 4.15e+00 1reqB 637 4.30e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 1x8dA 104 4.51e+00 2f6hX 419 4.80e+00 1fgkA 310 4.89e+00 1fgkA d.144.1.7 41693 2eboA 74 5.09e+00 2eboA h.3.2.1 45754 1z6nA 167 5.46e+00 1r45A 204 5.48e+00 1b3mA 389 5.52e+00 1b3mA 1l9fA 389 5.64e+00 c.3.1.2,d.16.1.3 73716,73717 1el5A 389 5.73e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1svr 114 5.78e+00 1svy d.109.1.1 40833 1rvgA 305 5.83e+00 c.1.10.2 97920 1reqD 637 6.58e+00 1reqB c.1.19.1,c.23.6.1 29623,31250 1hm9A 468 6.77e+00 b.81.1.4,c.68.1.5 65866,65867 2d1eA 248 6.91e+00 2as0A 396 6.95e+00 2f9fA 177 7.06e+00 1o0xA 262 7.27e+00 d.127.1.1 80755 1h7mA 102 7.35e+00 d.79.3.1 83485 2c07A 285 7.54e+00 1e6cA 173 7.55e+00 1shkA c.37.1.2 59296 1z41A 338 8.04e+00 1wdeA 294 8.36e+00 1zbmA 280 8.49e+00 1wz7A 111 9.13e+00 1aj8A 371 9.23e+00 1aj8A a.103.1.1 18900 1c4rA 182 9.36e+00 1c4rA b.29.1.4 24229 1h2eA 207 9.70e+00 c.60.1.1 70857 1svq 114 9.78e+00 1svy d.109.1.1 40832 1n9lA 109 1.02e+01 d.110.3.6 85468 1jvwA 167 1.02e+01 d.26.1.1 71907 1shkA 173 1.04e+01 1shkA c.37.1.2 31932 1mjnA 179 1.05e+01 c.62.1.1 79210 1u09A 476 1.08e+01 e.8.1.4 107545 1hl8A 449 1.09e+01 b.71.1.3,c.1.8.11 90646,90647 1mxiA 160 1.14e+01 c.116.1.1 79646 1n35A 1267 1.24e+01 e.8.1.4 79935 1w41A 101 1.25e+01 2tct 207 1.33e+01 2tct a.4.1.9,a.121.1.1 16063,19240 1mukA 1267 1.39e+01 e.8.1.4 79492 1k7hA 476 1.42e+01 c.76.1.1 72101 1hl9A 449 1.42e+01 b.71.1.3,c.1.8.11 90650,90651 1c3pA 375 1.42e+01 1c3pA c.42.1.2 32606 1nmuB 104 1.46e+01 d.79.3.1 80666 1dfd 64 1.50e+01 1fxd d.58.1.4 38995 1yovA 537 1.51e+01 2fz0A 149 1.52e+01 1vgwA 231 1.53e+01 c.68.1.13 100612 1yd9A 193 1.53e+01 1aq0A 306 1.53e+01 1aq0A c.1.8.3 28842 1ghr 306 1.62e+01 1aq0A c.1.8.3 28844 1j1uA 306 1.64e+01 c.26.1.1 83980 2shkA 173 1.64e+01 1shkA c.37.1.2 31934 1o94A 729 1.67e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1b1cA 181 1.69e+01 1amoA c.23.5.2 31212 1djqA 729 1.70e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 2fi9A 128 1.71e+01 1a6i 217 1.74e+01 2tct a.4.1.9,a.121.1.1 16066,19243 1aec 218 1.84e+01 1cs8A d.3.1.1 37003 1ywnA 316 1.86e+01 1ebbA 202 1.90e+01 c.60.1.1 64900 1ujrA 110 1.93e+01 1agi 125 1.94e+01 7rsa d.5.1.1 37303 1j6rA 214 2.03e+01 d.173.1.2 71598 1zr5A 214 2.04e+01 1dgqA 188 2.13e+01 1ido c.62.1.1 34131 1bu5A 147 2.14e+01 5nul c.23.5.1 31155 1tag 324 2.14e+01 1cipA a.66.1.1,c.37.1.8 18197,32080 2fvtA 135 2.15e+01 1hqz9 141 2.16e+01 1jtdB 273 2.16e+01 b.69.5.2 67265 1akw 147 2.22e+01 5nul c.23.5.1 31153 1q16B 512 2.24e+01 d.58.1.5 95548 1tadA 324 2.25e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1g97A 459 2.25e+01 1fwyA b.81.1.4,c.68.1.5 60394,60395 1z0wA 207 2.28e+01 1dax 64 2.30e+01 1fxd d.58.1.4 38996 1fjgN 61 2.35e+01 1fjfN g.39.1.7 45154 1ycdA 243 2.35e+01 1fxrA 64 2.35e+01 1fxd d.58.1.4 38993 1nbaA 264 2.36e+01 1nbaA c.33.1.3 31753 1hkhA 279 2.37e+01 c.69.1.12 90628 1ja9A 274 2.38e+01 c.2.1.2 62817 2a5vA 213 2.44e+01 1kx5B 102 2.45e+01 a.22.1.1 77594 1w24A 182 2.46e+01 1g6oA 330 2.50e+01 1g6oA c.37.1.11 32430 2fx2 147 2.51e+01 1rcf c.23.5.1 31158 1hqz1 141 2.52e+01 1lucA 355 2.53e+01 1lucA c.1.16.1 29547 1t5oA 351 2.54e+01 c.124.1.5 106459 1akq 147 2.55e+01 5nul c.23.5.1 31159 1chmA 401 2.66e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1y5iB 512 2.68e+01 2act 220 2.72e+01 1cs8A d.3.1.1 37002 1je0A 236 2.75e+01 c.56.2.1 66581 2fyxA 143 2.85e+01 1akr 147 2.85e+01 1rcf c.23.5.1 31152 1n6jG 35 2.86e+01 1uqrA 154 2.87e+01 c.23.13.1 99779 1brlA 355 2.87e+01 1lucA c.1.16.1 29553 1j0aA 325 2.91e+01 c.79.1.1 83871 1lfaA 187 2.92e+01 1ido c.62.1.1 34122 1o08A 221 2.93e+01 c.108.1.6 86525 1id3B 102 2.97e+01 a.22.1.1 66113 1azl 147 2.98e+01 5nul c.23.5.1 31154 1ffkG 145 2.98e+01 1ffkG c.21.1.1 31035 1as0 353 2.99e+01 1cipA a.66.1.1,c.37.1.8 18212,32095 1r6lA 239 3.00e+01 d.14.1.4,d.101.1.1 97153,97154 1g5aA 628 3.02e+01 b.71.1.1,c.1.8.1 65152,65153 1z2aA 168 3.03e+01 1lvhA 221 3.04e+01 c.108.1.6 74282 2cwoA 197 3.05e+01 1m7bA 184 3.07e+01 c.37.1.8 74572 1vqzA 341 3.07e+01 1akt 147 3.08e+01 5nul c.23.5.1 31157 1cipA 353 3.09e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1chd 203 3.09e+01 1chd c.40.1.1 32478 1k3rA 268 3.12e+01 b.40.4.10,c.116.1.2 72018,72019 1u53A 196 3.12e+01 1d2gA 292 3.16e+01 1xvaA c.66.1.5 34187 1bouB 302 3.21e+01 1bouB c.56.6.1 33859 1z2wA 192 3.24e+01 1b7lA 130 3.25e+01 3lzt d.2.1.2 36515 1f4pA 147 3.26e+01 5nul c.23.5.1 59651 1e5xA 486 3.27e+01 c.79.1.1 59283 1fjxA 327 3.33e+01 6mhtA c.66.1.26 34228 1txgA 335 3.36e+01 1ay7B 89 3.38e+01 1ay7B c.9.1.1 30836 1i1sA 96 3.38e+01 1bjaA a.4.5.9 16124 1i6pA 220 3.42e+01 1ddzA c.53.2.1 61848 1na3A 91 3.44e+01 k.38.1.1 85481 1bvyF 191 3.45e+01 1bvyF c.23.5.1 31207 1is2A 661 3.49e+01 a.29.3.2,a.29.3.2,e.6.1.2 71382,71383,71384 1bhjA 292 3.49e+01 1xvaA c.66.1.5 34189 1ghsA 306 3.50e+01 1aq0A c.1.8.3 28840 1gio 125 3.52e+01 7rsa d.5.1.1 37304 1v5sA 126 3.53e+01 d.129.6.1 108384 1djnA 729 3.56e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1lyxA 248 3.59e+01 c.1.1.1 78304 1j9eA 147 3.62e+01 c.23.5.1 62756 2ae5B 528 3.67e+01 1tahB 318 3.68e+01 1cvl c.69.1.18 34774 2tmdA 729 3.75e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1tahA 318 3.76e+01 1cvl c.69.1.18 34775 1b37A 472 3.77e+01 1b37B c.3.1.2,d.16.1.5 30389,37953 1v9jA 113 3.79e+01 d.52.6.1 100542 1wtjA 343 3.79e+01 2cygA 312 3.80e+01 1eyrA 228 3.80e+01 1eyrA c.68.1.13 34514 1ehiA 377 3.81e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1o5xA 248 3.84e+01 c.1.1.1 92528 1hq3D 103 3.85e+01 1aoiB a.22.1.1 16464 1iioA 84 3.89e+01 a.39.4.1 66150 2avdA 219 3.89e+01 1ad2 228 3.92e+01 1ad2 e.24.1.1 43353 1ln4A 104 3.96e+01 d.68.4.1 74043 1xrsA 516 3.96e+01 1gtkA 313 3.97e+01 c.94.1.1,d.50.2.1 76346,76347 1q0rA 298 3.98e+01 c.69.1.28 95508 1cvl 319 3.98e+01 1cvl c.69.1.18 34786 1vm7A 311 4.00e+01 c.72.1.1 108884 1tzyD 103 4.00e+01 a.22.1.1 107533 1ur1A 378 4.00e+01 c.1.8.3 99804 1b5qA 472 4.02e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1uae 419 4.07e+01 1uae d.68.2.2 39574 1olsA 400 4.09e+01 c.36.1.11 93331 1amoA 615 4.11e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 1mvwC 147 4.11e+01 i.15.1.1 79525 1o1fC 147 4.11e+01 i.15.1.1 80997 1yisA 478 4.12e+01 1jo0A 98 4.16e+01 d.68.4.1 77140 1azsC 388 4.21e+01 1cipA a.66.1.1,c.37.1.8 18203,32086 1nz6A 101 4.21e+01 a.2.3.1 86441 1d7oA 297 4.25e+01 1enp c.2.1.2 29907 1vokA 200 4.27e+01 1ytbA d.129.1.1,d.129.1.1 41242,41243 1xfjA 261 4.29e+01 d.194.1.2 109585 1x7yA 400 4.32e+01 1khdA 345 4.32e+01 a.46.2.1,c.27.1.1 77400,77401 1svy 114 4.38e+01 1svy d.109.1.1 40831 487dH 224 4.40e+01 1ad2 i.1.1.2 45835 1jvr 137 4.43e+01 1jvr a.61.1.2 18132 1j5eN 60 4.43e+01 g.39.1.7 71557 1y5mA 276 4.47e+01 1b37B 472 4.49e+01 1b37B c.3.1.2,d.16.1.5 30390,37954 2etjA 250 4.51e+01 1qwgA 251 4.54e+01 c.1.27.1 96473 2bwkA 121 4.64e+01 1mo7A 213 4.65e+01 d.220.1.1 85028 1eg7A 557 4.78e+01 1eg7A c.37.1.10 32241 1hmy 327 4.78e+01 6mhtA c.66.1.26 34229 1brsD 89 4.81e+01 1ay7B c.9.1.1 30825 1w9gA 104 4.81e+01 2f02A 323 4.85e+01 1qnaA 200 4.86e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1gk1B 522 4.87e+01 1n6aA 259 4.90e+01 b.76.2.1,b.85.7.1 80121,80122 1e5mA 416 4.91e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1o4yA 288 4.96e+01 b.29.1.2 92473 1evsA 187 4.96e+01 1evsA a.26.1.1 16845 1wz8A 264 4.97e+01 1irqA 71 4.97e+01 a.43.1.4 66297 1v0wA 506 4.99e+01 d.136.1.2,d.136.1.2 108220,108221 1k6iA 352 5.01e+01 c.2.1.2 68223 2bfdA 400 5.03e+01 1b4uB 302 5.03e+01 1bouB c.56.6.1 33861 1kwgA 645 5.10e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1akeA 214 5.10e+01 1zin c.37.1.1,g.41.2.1 31905,45185 1r29A 127 5.11e+01 d.42.1.1 96856 1e4yA 214 5.17e+01 1zin c.37.1.1,g.41.2.1 31901,45181 8pchA 220 5.19e+01 1cs8A 1lfo 128 5.24e+01 1hmt b.60.1.2 27223 2c6qA 351 5.24e+01 1b25A 619 5.28e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1wmmA 145 5.31e+01 1r6jA 82 5.33e+01 b.36.1.1 97151 1ejdA 419 5.36e+01 1uae d.68.2.2 39576 1ldnA 316 5.38e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 1t5bA 201 5.40e+01 c.23.5.3 106433 1kwkA 645 5.45e+01 b.71.1.1,c.1.8.1,c.23.16.5 77565,77566,77567 1ja1A 622 5.45e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1fmk 452 5.51e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1l6rA 227 5.59e+01 c.108.1.10 77768 2blkA 122 5.59e+01 1a6zA 275 5.63e+01 1agdA b.1.1.2,d.19.1.1 20781,38280 1pmy 123 5.64e+01 1bqk b.6.1.1 22888 1xgkA 352 5.65e+01 2a90A 240 5.66e+01 1sxgA 280 5.69e+01 1vk1A 242 5.69e+01 d.268.1.2 108634 1s57A 153 5.70e+01 1a2n 419 5.70e+01 1uae d.68.2.2 39575 1l8aA 886 5.74e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1qxoA 388 5.78e+01 d.258.1.1 96539 1k6xA 352 5.80e+01 c.2.1.2 68238 1rlaA 323 5.90e+01 1d3vA c.42.1.1 32561 1inlA 296 5.91e+01 c.66.1.17 66220 1ysc 421 5.91e+01 1ivyA c.69.1.5 34652 1cpy 421 5.97e+01 1ivyA c.69.1.5 34651 2aaa 484 5.99e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1sz9A 144 6.01e+01 a.118.9.4 106139 1bpe 335 6.01e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 18076,75815,75816 1jqSB 32 6.02e+01 1jqsB 32 6.02e+01 i.1.1.1 63238 1svsA 353 6.02e+01 c.37.1.8 106051 1xvaA 292 6.05e+01 1xvaA c.66.1.5 34183 1exbA 332 6.10e+01 1qrqA c.1.7.1 28666 1am2 199 6.12e+01 1am2 b.86.1.2 28381 1lxyA 409 6.12e+01 d.126.1.4 91154 1un3A 123 6.13e+01 d.5.1.1 99646 1jq3A 296 6.14e+01 c.66.1.17 67079 1kxiA 62 6.17e+01 1tgxA g.7.1.1 44417 1f20A 435 6.17e+01 b.43.4.1,c.25.1.4 64932,64933 1aisA 182 6.21e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1hm2A 700 6.25e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 61083,61084,61085 1e0nA 27 6.30e+01 b.72.1.1 27807 1t4hA 290 6.31e+01 d.144.1.7 106420 1zd8A 227 6.33e+01 2co5A 99 6.37e+01 1xdwA 331 6.42e+01 1guaA 167 6.46e+01 1ctqA c.37.1.8 32013 1awo 62 6.47e+01 1bbzA b.34.2.1 24482 1zgdA 312 6.47e+01 1pmzA 86 6.50e+01 a.39.1.10 104195 1fm2B 520 6.50e+01 1fm2B 1aoiF 87 6.54e+01 1aoiB a.22.1.1 16471 1s9rA 410 6.56e+01 d.126.1.4 98758 1j09A 468 6.57e+01 a.97.1.1,c.26.1.1 77025,77026 1eziA 228 6.61e+01 1eyrA c.68.1.13 34512 1fknA 391 6.61e+01 1fknA b.50.1.2 26879 1knqA 175 6.63e+01 c.37.1.17 72786 1v5tA 90 6.69e+01 d.15.1.1 108385 1i6iA 366 6.70e+01 1bg2 c.37.1.9 61844 1dctA 324 6.70e+01 6mhtA c.66.1.26 34244 1rqwA 207 6.70e+01 b.25.1.1 97781 1d3vA 323 6.72e+01 1d3vA c.42.1.1 32559 1thv 207 6.72e+01 1thv b.25.1.1 23904 1b1jA 123 6.78e+01 7rsa d.5.1.1 37298 2blrA 206 6.79e+01 1v1rA 400 6.80e+01 c.36.1.11 108272 1ah7 245 6.82e+01 1ah7 a.124.1.1 19339 1i36A 264 6.84e+01 a.100.1.8,c.2.1.6 71108,71109 1r6wA 322 6.84e+01 c.1.11.2,d.54.1.1 97165,97166 1v7cA 351 6.84e+01 c.79.1.1 100446 1b2sD 90 6.85e+01 1ay7B c.9.1.1 30837 1v37A 177 6.86e+01 1m2kA 249 6.86e+01 c.31.1.5 84754 1t46A 313 6.87e+01 d.144.1.7 106397 1hbyA 123 6.95e+01 7rsa d.5.1.1 60936 1vbvA 105 6.98e+01 1ah0 316 6.98e+01 1frb c.1.7.1 28685 1knwA 425 6.99e+01 b.49.2.3,c.1.6.1 90969,90970 1jw2A 72 7.02e+01 a.23.5.1 67372 1vp8A 201 7.04e+01 1y81A 138 7.05e+01 1ydnA 295 7.06e+01 1ukuA 102 7.09e+01 d.58.5.2 99533 2h1rA 299 7.11e+01 2c1vA 338 7.12e+01 1vfvA 366 7.15e+01 c.37.1.9 108592 1b7qA 130 7.18e+01 3lzt d.2.1.2 36549 1rkd 309 7.31e+01 1rkd c.72.1.1 34928 1cb8A 678 7.33e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1qrqA 325 7.34e+01 1qrqA c.1.7.1 28667 2gvkA 317 7.38e+01 1ir3A 306 7.39e+01 1fmk d.144.1.7 41702 1tz9A 367 7.41e+01 c.1.15.6 107466 1b27D 90 7.41e+01 1ay7B c.9.1.1 30840 1d3uA 181 7.42e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1cydA 244 7.48e+01 1cydA c.2.1.2 29825 1i5sA 367 7.53e+01 1bg2 c.37.1.9 61822 1sdsA 117 7.54e+01 d.79.3.1 105439 1b7mA 130 7.58e+01 3lzt d.2.1.2 36569 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187 8.28e+01 1tp9A 162 8.31e+01 1ujcA 161 8.35e+01 1yobA 179 8.37e+01 1us0A 316 8.41e+01 c.1.7.1 99850 1wveC 80 8.46e+01 133l 130 8.48e+01 3lzt d.2.1.2 36524 1mbyA 88 8.53e+01 d.223.1.1 78931 1d0qA 103 8.54e+01 1d0qA g.41.3.2 45208 1whxA 111 8.57e+01 1smrA 335 8.60e+01 1smrA b.50.1.2 26878 1fhuA 320 8.63e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1aoiB 87 8.64e+01 1aoiB a.22.1.1 16470 1mwwA 128 8.67e+01 d.80.1.4 91483 1irk 306 8.71e+01 1fmk d.144.1.7 41703 1o20A 427 8.74e+01 c.82.1.1 86556 2ak3A 226 8.75e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1izoA 417 8.76e+01 a.104.1.1 83851 1v54J 59 8.81e+01 f.23.4.1 100331 1hg3A 225 8.81e+01 1hg3A c.1.1.1 61025 1ys1X 320 8.82e+01 1h3fA 432 8.82e+01 c.26.1.1,d.66.1.4 76631,76632 1b5zA 130 8.83e+01 3lzt d.2.1.2 36567 1q3eA 207 8.92e+01 b.82.3.2 95669 1tw4A 125 8.93e+01 2bznA 351 8.94e+01 2wsyB 396 8.94e+01 2tysB c.79.1.1 35288 1xu9A 286 8.99e+01