📄 meme.lipocalin.oops
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********************************************************************************MEME - Motif discovery tool********************************************************************************MEME version 3.5.3 (Release date: 2006-03-08 09:30:25 +1000 (Wed, 08 Mar 2006))For further information on how to interpret these results or to geta copy of the MEME software please access http://meme.nbcr.net.This file may be used as input to the MAST algorithm for searchingsequence databases for matches to groups of motifs. MAST is availablefor interactive use and downloading at http://meme.nbcr.net.****************************************************************************************************************************************************************REFERENCE********************************************************************************If you use this program in your research, please cite:Timothy L. Bailey and Charles Elkan,"Fitting a mixture model by expectation maximization to discovermotifs in biopolymers", Proceedings of the Second InternationalConference on Intelligent Systems for Molecular Biology, pp. 28-36,AAAI Press, Menlo Park, California, 1994.****************************************************************************************************************************************************************TRAINING SET********************************************************************************DATAFILE= /home/tbailey/tests/lipocalin.sALPHABET= ACDEFGHIKLMNPQRSTVWYSequence name Weight Length Sequence name Weight Length ------------- ------ ------ ------------- ------ ------ ICYA_MANSE 1.0000 189 LACB_BOVIN 1.0000 178 BBP_PIEBR 1.0000 173 RETB_BOVIN 1.0000 183 MUP2_MOUSE 1.0000 180 ****************************************************************************************************************************************************************COMMAND LINE SUMMARY********************************************************************************This information can also be useful in the event you wish to report aproblem with the MEME software.command: meme /home/tbailey/tests/lipocalin.s -mod oops -protein -nostatus -nmotifs 2 model: mod= oops nmotifs= 2 evt= infobject function= E-value of product of p-valueswidth: minw= 8 maxw= 50 minic= 0.00width: wg= 11 ws= 1 endgaps= yesnsites: minsites= 5 maxsites= 5 wnsites= 0.8theta: prob= 1 spmap= pam spfuzz= 120em: prior= dmix b= 0 maxiter= 50 distance= 1e-05data: n= 903 N= 5sample: seed= 0 seqfrac= 1Dirichlet mixture priors file: prior30.plibLetter frequencies in dataset:A 0.072 C 0.029 D 0.069 E 0.078 F 0.043 G 0.058 H 0.025 I 0.048 K 0.086 L 0.087 M 0.018 N 0.053 P 0.032 Q 0.029 R 0.031 S 0.059 T 0.048 V 0.070 W 0.017 Y 0.050 Background letter frequencies (from dataset with add-one prior applied):A 0.072 C 0.029 D 0.068 E 0.077 F 0.043 G 0.057 H 0.026 I 0.048 K 0.086 L 0.087 M 0.018 N 0.053 P 0.033 Q 0.029 R 0.031 S 0.059 T 0.048 V 0.069 W 0.017 Y 0.050 ****************************************************************************************************************************************************************MOTIF 1 width = 19 sites = 5 llr = 187 E-value = 8.9e-006********************************************************************************-------------------------------------------------------------------------------- Motif 1 Description--------------------------------------------------------------------------------Simplified A :::::::22:6:2::2:8:pos.-specific C :::::::::::::::::::probability D ::22:8:::::::::::::matrix E ::2::::2::::2::4::: F ::::8::::4::::::::: G :2:2:::::::a::::::: H ::::::::::2:::4:::: I ::::::2::2::::::42: K :22:::2:4:::2:::::6 L ::::2:2:::::::::2:2 M :2::::::::::::::2:2 N ::26:2::2:2:::::::: P 4:::::::::::::::::: Q :::::::2::::::::::: R ::2:::::2:::::::::: S :::::::4:::::::2::: T 4:::::::::::4::2::: V 24::::2::2::::::2:: W ::::::2::::::a2:::: Y :::::::::2::::4:::: bits 5.9 * 5.3 * 4.7 * 4.1 * * Information 3.5 ** * ** content 2.9 * *** ** ** * (53.9 bits) 2.3 ** *** ***** ** *** 1.8 ******************* 1.2 ******************* 0.6 ******************* 0.0 -------------------Multilevel PVDNFDISKFAGTWHEIAKconsensus TGEDLNKAAIH A YALILsequence VKKG LENVN E WSM M MN VQRY K TV R W ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 1 sites sorted by position p-value--------------------------------------------------------------------------------Sequence name Start P-value Site ------------- ----- --------- -------------------ICYA_MANSE 14 1.43e-18 FYPGYCPDVK PVNDFDLSAFAGAWHEIAK LPLENENQGKBBP_PIEBR 13 9.75e-18 YHDGACPEVK PVDNFDWSNYHGKWWEVAK YPNSVEKYGKRETB_BOVIN 11 1.99e-16 ERDCRVSSFR VKENFDKARFAGTWYAMAK KDPEGLFLQDLACB_BOVIN 22 9.62e-15 CGAQALIVTQ TMKGLDIQKVAGTWYSLAM AASDISLLDAMUP2_MOUSE 24 4.53e-14 VCVHAEEASS TGRNFNVEKINGEWHTIIL ASDKREKIED---------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 1 block diagrams--------------------------------------------------------------------------------SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM------------- ---------------- -------------ICYA_MANSE 1.4e-18 13_[1]_157BBP_PIEBR 9.7e-18 12_[1]_142RETB_BOVIN 2e-16 10_[1]_154LACB_BOVIN 9.6e-15 21_[1]_138MUP2_MOUSE 4.5e-14 23_[1]_138---------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 1 in BLOCKS format--------------------------------------------------------------------------------BL MOTIF 1 width=19 seqs=5ICYA_MANSE ( 14) PVNDFDLSAFAGAWHEIAK 1 BBP_PIEBR ( 13) PVDNFDWSNYHGKWWEVAK 1 RETB_BOVIN ( 11) VKENFDKARFAGTWYAMAK 1 LACB_BOVIN ( 22) TMKGLDIQKVAGTWYSLAM 1 MUP2_MOUSE ( 24) TGRNFNVEKINGEWHTIIL 1 //---------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 1 position-specific scoring matrix--------------------------------------------------------------------------------log-odds matrix: alength= 20 w= 19 n= 813 bayes= 7.33628 E= 8.9e-006 -93 -241 -296 -256 -247 -224 -228 -113 -258 -190 -106 -229 361 -141 -151 -73 242 71 -330 -325 -63 -187 -232 -163 -140 75 -134 22 37 -77 241 -166 -172 -51 -40 -100 -53 221 -226 -208 -71 -310 103 103 -254 -142 -60 -205 81 -207 -94 124 -126 52 201 -34 -50 -195 -285 -234 -242 -375 92 -196 -382 91 -98 -352 -243 -408 -311 349 -242 -122 -182 -80 -157 -389 -397 -351 -318 -290 -467 -456 425 -423 -363 -172 -484 -47 -115 -430 -331 -373 -362 -296 -352 -245 -202 -103 -301 -418 363 -117 -408 -310 -244 -367 -403 -415 -323 -21 -370 -260 -284 -260 -313 -381 -414 -410 -107 -180 -350 -287 -106 -249 -200 251 -5 95 46 -249 -221 -152 -148 -153 -77 137 217 -191 96 -298 -78 114 -258 -152 -75 -202 -65 -209 -96 -73 -125 216 7 200 -40 -190 -293 -244 64 -339 -187 -114 -314 -206 -99 -238 222 -242 -133 101 -185 18 221 -102 -106 -240 -310 -282 -180 -226 -378 -340 342 -310 -122 98 -351 -88 -39 -305 -258 -227 -212 -200 -176 43 -146 170 273 -215 -127 -140 -272 -123 196 -223 -154 -247 -141 118 -194 -56 -71 -37 -96 -174 -321 -276 -198 -392 -300 -366 -445 397 -328 -418 -373 -473 -335 -252 -325 -311 -239 -220 -319 -402 -398 -452 89 -295 -91 104 -246 -153 -67 -184 77 -196 -82 -70 -123 52 29 -26 223 -176 -280 -234 -388 -388 -438 -441 -134 -384 -353 -366 -445 -246 -240 -397 -380 -303 -275 -375 -362 -359 569 -207 -290 -318 -383 -376 74 -360 354 -251 -386 -230 -173 -259 -307 -176 -201 -252 -277 -283 285 292 106 -271 -97 173 -260 -150 -93 -197 -87 -214 -101 -85 -134 26 -13 137 156 -183 -299 -255 -245 -306 -430 -410 -197 -384 -360 356 -396 52 173 -359 -346 -288 -286 -287 -197 121 -336 -320 328 -140 -376 -329 -260 -140 -310 73 -352 -200 -114 -318 -308 -242 -222 -45 -138 -73 -332 -364 -191 -312 -315 -227 -234 -288 -184 -127 276 37 218 -223 -256 -77 45 -195 -163 -176 -307 -303 ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Motif 1 position-specific probability matrix--------------------------------------------------------------------------------letter-probability matrix: alength= 20 w= 19 nsites= 5 E= 8.9e-006 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.400000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.200000 0.200000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.800000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.800000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.200000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.200000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.200000 0.600000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.200000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.400000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.200000 0.400000 ⌨️ 快捷键说明
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