VIMSS Operon Predictions for Buchnera aphidicola str. Sg

For each pair of adjacent genes on the same strand, we report whether they are predicted to be in the same operon, and the two most important features. Small plasmids and, in draft genomes, small scaffolds, are excluded.

Also see:

Column Description
Gene1 VIMSS id of 1st gene in pair
SysName1 Systematic name of 1st gene in pair
Name1 Ordinary name of 1st gene in pair
Gene2 VIMSS id of 2nd gene in pair
SysName2 Systematic name of 2nd gene in pair
Name2 Ordinary name of 2nd gene in pair
bOp Whether the pair is predicted to lie in the same operon or not
pOp Estimated probability that the pair is in the same operon. Values near 1 or 0 are confident predictions of being in the same operon or not, while values near 0.5 are low-confidence predictions.
Sep Distance between the two genes, in base pairs
GNMinus An indicator of conservation (gene neighbor score, surprisal subtracted). Positive scores indicate conservation, and scores above 5 are generally strongly indicative of operons

 Gene1 Gene2 SysName1 SysName2 Name1 Name2 bOp pOp Sep GNMinus
 268158 268159 BUsg001 BUsg002 gidA atpB FALSE 0.155 130 -50.819
 268159 268160 BUsg002 BUsg003 atpB atpE TRUE 0.992 43 1012.25
 268160 268161 BUsg003 BUsg004 atpE atpF TRUE 0.942 111 824.139
 268161 268162 BUsg004 BUsg005 atpF atpH TRUE 0.998 12 861.27
 268162 268163 BUsg005 BUsg006 atpH atpA TRUE 0.998 14 1263.692
 268163 268164 BUsg006 BUsg007 atpA atpG TRUE 0.99 67 1789.327
 268164 268165 BUsg007 BUsg008 atpG atpD TRUE 0.998 22 1566.734
 268165 268166 BUsg008 BUsg009 atpD atpC TRUE 0.997 22 1100.181
 268167 268168 BUsg010 BUsg011 gyrB dnaN TRUE 0.692 155 248.94
 268168 268169 BUsg011 BUsg012 dnaN dnaA TRUE 0.998 5 957.979
 268170 268171 BUsg013 BUsg014 rpmH rnpA TRUE 0.986 14 370.206
 268171 268172 BUsg014 BUsg015 rnpA yidD TRUE 0.97 -21 95.01
 268172 268173 BUsg015 BUsg016 yidD yidC TRUE 0.976 0 167.83
 268173 268174 BUsg016 BUsg017 yidC thdF TRUE 0.941 43 404.494
 268175 268176 BUsg018 BUsg019 mopB mopA TRUE 0.991 58 1479.859
 268179 268180 BUsg022 BUsg023 dnaC dnaT TRUE 0.89 0 31.277
 268181 268182 BUsg025 BUsg026 ftsY rpoH FALSE 0.219 156 0.474
 268183 268184 BUsg027 BUsg028 glmS glmU TRUE 0.958 64 429.659
 268188 268189 BUsg032 BUsg033 purH hupA FALSE 0.043 142 -47.931
 268189 268190 BUsg033 BUsg034 hupA rpoC FALSE 0.132 470 -44.417
 268190 268191 BUsg034 BUsg035 rpoC rpoB TRUE 0.969 69 1017.89
 268191 2179452 BUsg035 BUsg036 rpoB rplL TRUE 0.83 206 988.32
 2179452 268193 BUsg036 BUsg037 rplL rplJ TRUE 0.992 50 1641.466
 268193 268194 BUsg037 BUsg038 rplJ rplA TRUE 0.92 248 1228.268
 268194 268195 BUsg038 BUsg039 rplA rplK TRUE 0.999 2 1802.254
 268195 268196 BUsg039 BUsg040 rplK nusG TRUE 0.992 28 1368.262
 268196 268197 BUsg040 BUsg041 nusG secE TRUE 0.986 5 254.578
 268197 400306 BUsg041 BUsg585 secE tRNA-Thr FALSE 0.021 323 0
 400306 2179453 BUsg585 BUsg586 tRNA-Thr FALSE 0.246 25 0
 2179453 400304 BUsg586 BUsg587 tRNA-Tyr FALSE 0.449 7 0
 400304 400303 BUsg587 BUsg588 tRNA-Tyr tRNA-Thr FALSE 0.364 15 0
 400303 268198 BUsg588 BUsg042 tRNA-Thr murB FALSE 0.022 136 0
 268201 268202 BUsg045 BUsg046 argC argB TRUE 0.992 16 211.07
 268202 268203 BUsg046 BUsg047 argB argG TRUE 0.967 29 37.633
 268203 268204 BUsg047 BUsg048 argG argH TRUE 0.986 41 547.089
 268204 268205 BUsg048 BUsg049 argH yibN FALSE 0.005 131 -25.672
 268205 268206 BUsg049 BUsg050 yibN secB TRUE 0.77 76 262.461
 268206 2179454 BUsg050 BUsg051 secB cysE FALSE 0.011 94 -32.461
 268208 268209 BUsg052 BUsg053 rpoD dnaG TRUE 0.712 114 286.155
 268209 268210 BUsg053 BUsg054 dnaG rpsU TRUE 0.726 79 187.968
 268212 268213 BUsg056 BUsg057 ribB rfaE FALSE 0.04 275 -2.088
 268215 268216 BUsg059 BUsg060 bacA crr FALSE 0.138 63 -21.168
 268216 268217 BUsg060 BUsg061 crr ptsI TRUE 0.93 56 131.694
 268217 268218 BUsg061 BUsg062 ptsI ptsH TRUE 0.922 144 660.746
 268218 268219 BUsg062 BUsg063 ptsH cysK FALSE 0.166 139 52.358
 268219 400302 BUsg063 BUsg589 cysK tRNA-Lys FALSE 0.024 2440 0
 400302 2179455 BUsg589 BUsg590 tRNA-Lys FALSE 0.378 14 0
 2179456 400276 BUsg065 BUsg591 gltX tRNA-Ala FALSE 0.02 241 0
 268222 268223 BUsg067 BUsg068 fliF fliG TRUE 0.998 -3 606.931
 268223 268224 BUsg068 BUsg069 fliG fliH TRUE 0.986 -7 13.997
 268224 2179457 BUsg069 BUsg070 fliH fliI TRUE 0.97 -6 5.618
 2179457 268226 BUsg070 BUsg071 fliI fliJ TRUE 0.927 35 112.673
 268226 268227 BUsg071 BUsg072 fliJ fliK TRUE 0.725 -7 0
 268227 268228 BUsg072 BUsg073 fliK fliM FALSE 0.026 105 0
 268228 268229 BUsg073 BUsg074 fliM fliN TRUE 0.938 17 15.127
 268229 268230 BUsg074 BUsg075 fliN fliP TRUE 0.941 6 0.009
 268230 268231 BUsg075 BUsg076 fliP fliQ TRUE 0.855 44 0.009
 268231 268232 BUsg076 BUsg077 fliQ fliR TRUE 0.999 0 714.557
 268233 268234 BUsg078 BUsg079 rpmG rpmB TRUE 0.996 6 551.047
 2179458 268238 BUsg617 BUsg083 rnpB yraL FALSE 0.05 78 0
 268239 268240 BUsg084 BUsg085 fabB tal FALSE 0.005 144 -25.777
 268240 268241 BUsg085 BUsg086 tal tkt TRUE 0.761 51 1.539
 268241 2179459 BUsg086 BUsg087 tkt dapE FALSE 0.019 63 -30.964
 268246 268247 BUsg091 BUsg092 Y098 hisG FALSE 0.005 325 -20.459
 268247 268248 BUsg092 BUsg093 hisG hisD TRUE 0.996 8 345.075
 268248 268249 BUsg093 BUsg094 hisD hisC TRUE 0.998 -3 513.253
 268249 268250 BUsg094 BUsg095 hisC hisB TRUE 0.981 27 230.495
 268250 268251 BUsg095 BUsg096 hisB hisH TRUE 0.994 1 243.171
 268251 268252 BUsg096 BUsg097 hisH hisA TRUE 0.999 7 1194.928
 268252 268253 BUsg097 BUsg098 hisA hisF TRUE 0.999 -18 1084.745
 268253 268254 BUsg098 BUsg099 hisF hisI TRUE 0.998 -6 458.495
 268254 268255 BUsg099 BUsg100 hisI gnd FALSE 0.029 425 -4.68
 268255 268256 BUsg100 BUsg101 gnd dcd FALSE 0.004 162 -27.244
 268256 268257 BUsg101 BUsg102 dcd metG FALSE 0.082 94 -41.422
 268258 400300 BUsg103 BUsg592 mesJ tRNA-Val FALSE 0.216 29 0
 268259 268260 BUsg104 BUsg105 ribE rnfA FALSE 0.043 35 -28.11
 268260 268261 BUsg105 BUsg106 rnfA ydgM TRUE 0.993 3 220.267
 268261 268262 BUsg106 BUsg108 ydgM ydgO FALSE 0.407 1681 -48.719
 268262 268263 BUsg108 BUsg109 ydgO ydgP TRUE 0.996 -3 259.537
 268263 268264 BUsg109 BUsg110 ydgP ydgQ TRUE 0.992 17 251.877
 268264 268265 BUsg110 BUsg111 ydgQ nth TRUE 0.976 8 179.701
 268265 268266 BUsg111 BUsg112 nth priA TRUE 0.624 27 -24.273
 268266 268267 BUsg112 BUsg113 priA tyrS FALSE 0.004 163 -22.918
 268269 268270 BUsg115 BUsg116 ydiK aroH FALSE 0.005 412 -31.267
 268270 268271 BUsg116 BUsg117 aroH thrS FALSE 0.005 118 -35.297
 268271 2179460 BUsg117 BUsg118 thrS infC TRUE 0.997 4 655.864
 2179460 268272 BUsg118 BUsg119 infC rpmI TRUE 0.972 72 1027.725
 268272 268273 BUsg119 BUsg120 rpmI rplT TRUE 0.993 42 1716.693
 268273 268274 BUsg120 BUsg121 rplT pheS TRUE 0.884 155 677.928
 268274 268275 BUsg121 BUsg122 pheS pheT TRUE 0.999 10 1395.485
 268275 268276 BUsg122 BUsg123 pheT himA TRUE 0.991 5 396.105
 268276 268277 BUsg123 BUsg124 himA queA FALSE 0.012 76 -28.643
 268277 268278 BUsg124 BUsg125 queA tgt TRUE 0.987 57 707.806
 268278 268279 BUsg125 BUsg126 tgt yajC TRUE 0.963 35 398.219
 2179461 268281 BUsg127 BUsg128 glyS glyQ TRUE 0.999 -34 1016.988
 268282 268283 BUsg129 BUsg130 folE nfo FALSE 0.004 147 -24.911
 268283 268284 BUsg130 BUsg131 nfo rplY FALSE 0.03 45 -20.098
 268286 268287 BUsg133 BUsg134 surA ksgA TRUE 0.648 68 149.046
 268287 268288 BUsg134 BUsg135 ksgA apaH TRUE 0.902 30 228.323
 268289 268290 BUsg136 BUsg137 folA carB FALSE 0.01 81 -34.644
 268290 268291 BUsg137 BUsg138 carB carA TRUE 0.998 14 1083.435
 268291 268292 BUsg138 BUsg139 carA dapB TRUE 0.576 138 178.102
 268292 268293 BUsg139 BUsg140 dapB lytB FALSE 0.123 13 -25.523
 268293 268294 BUsg140 BUsg141 lytB lspA TRUE 0.767 74 229.12
 268294 268295 BUsg141 BUsg142 lspA ileS TRUE 0.996 -3 606.925
 268295 268296 BUsg142 BUsg143 ileS ribF TRUE 0.978 29 529.951
 268298 268299 BUsg145 BUsg146 dnaJ dnaK TRUE 0.954 103 1285.575
 268300 268301 BUsg147 BUsg148 nuoA nuoB TRUE 0.935 58 164.752
 268301 268302 BUsg148 BUsg149 nuoB nuoCD TRUE 0.754 106 147.793
 268302 268303 BUsg149 BUsg150 nuoCD nuoE TRUE 0.993 3 159.532
 268303 268304 BUsg150 BUsg151 nuoE nuoF TRUE 0.998 -3 475.608
 268304 268305 BUsg151 BUsg152 nuoF nuoG TRUE 0.92 72 196.046
 268305 268306 BUsg152 BUsg153 nuoG nuoH TRUE 0.995 -3 250.184
 268306 268307 BUsg153 BUsg154 nuoH nuoI TRUE 0.992 22 340.822
 268307 268308 BUsg154 BUsg155 nuoI nuoJ TRUE 0.992 15 252.334
 268308 268309 BUsg155 BUsg156 nuoJ nuoK TRUE 0.991 43 910.711
 268309 268310 BUsg156 BUsg157 nuoK nuoL TRUE 0.998 -3 659.165
 268310 268311 BUsg157 BUsg158 nuoL nuoM TRUE 0.966 85 698.339
 268311 268312 BUsg158 BUsg159 nuoM nuoN TRUE 0.995 32 936.446
 268312 268313 BUsg159 BUsg160 nuoN ygjT FALSE 0.125 67 -17.075
 268313 268314 BUsg160 BUsg161 ygjT folC FALSE 0.006 111 -21.734
 268315 268316 BUsg163 BUsg164 prsA ipk TRUE 0.913 70 484.847
 268317 268318 BUsg165 BUsg166 prfA hemK TRUE 0.999 -3 1251.078
 268318 268319 BUsg166 BUsg167 hemK ychA FALSE 0.149 165 110.499
 268321 268322 BUsg169 BUsg170 ackA pta TRUE 0.944 54 234.958
 268323 268324 BUsg172 BUsg173 nrdB nrdA TRUE 0.987 51 628.695
 268324 268325 BUsg173 BUsg174 nrdA gyrA FALSE 0.04 101 -47.695
 268327 268328 BUsg176 BUsg178 ahpC grpE FALSE 0.125 862 -3.546
 268329 268330 BUsg179 BUsg180 yfjB smpA FALSE 0.03 90 -16.117
 268333 2179463 BUsg183 BUsg184 sodA pth FALSE 0.005 139 -38.027
 2179463 268335 BUsg184 BUsg185 pth ychF TRUE 0.938 74 417.57
 268336 268337 BUsg186 BUsg187 thrC thrB TRUE 0.993 4 254.53
 268337 268338 BUsg187 BUsg188 thrB thrA TRUE 0.977 20 207.557
 268340 268341 BUsg190 BUsg191 panC panB TRUE 0.997 16 740.547
 268341 268342 BUsg191 BUsg192 panB dksA FALSE 0.033 99 -41.998
 268343 268344 BUsg193 BUsg195 truA secA FALSE 0.063 2469 -50.034
 268344 268345 BUsg195 BUsg196 secA mutT TRUE 0.884 30 110.193
 268347 268348 BUsg198 BUsg199 guaC aceE FALSE 0.004 227 -22.672
 268348 268349 BUsg199 BUsg200 aceE aceF TRUE 0.991 4 251.796
 268349 268350 BUsg200 BUsg201 aceF lpdA TRUE 0.985 27 386.268
 268351 268352 BUsg202 BUsg203 speD speE TRUE 0.922 28 47.697
 268352 268353 BUsg203 BUsg204 speE pfs FALSE 0.004 223 -24.82
 268353 268354 BUsg204 BUsg205 pfs yadR FALSE 0.011 78 -36.419
 268354 268355 BUsg205 BUsg206 yadR ftsZ FALSE 0.005 275 -37.558
 268355 268356 BUsg206 BUsg207 ftsZ ftsA TRUE 0.984 48 828.014
 268356 268357 BUsg207 BUsg208 ftsA ddlB TRUE 0.707 346 665.785
 268357 268358 BUsg208 BUsg210 ddlB murG FALSE 0.438 1499 -59.408
 268358 268359 BUsg210 BUsg211 murG ftsW TRUE 0.996 1 765.86
 268359 268360 BUsg211 BUsg212 ftsW murD TRUE 0.917 86 747.253
 268360 268361 BUsg212 BUsg216 murD ftsI FALSE 0.478 3931 -47.785
 268361 268362 BUsg216 BUsg217 ftsI ftsL FALSE 0.383 72 0.004
 268362 268363 BUsg217 BUsg218 ftsL yabC TRUE 0.901 3 0.004
 268363 268364 BUsg218 BUsg219 yabC ilvH FALSE 0.004 173 -39.862
 268364 268365 BUsg219 BUsg220 ilvH ilvI TRUE 0.998 5 1149.315
 268367 268368 BUsg223 BUsg224 dapD map FALSE 0.134 50 -28.223
 268369 268370 BUsg225 BUsg226 rpsB tsf TRUE 0.991 42 1354.663
 268370 268371 BUsg226 BUsg227 tsf pyrH TRUE 0.909 98 912.775
 268371 268372 BUsg227 BUsg228 pyrH frr TRUE 0.983 50 1602.705
 268372 268373 BUsg228 BUsg229 frr dxr TRUE 0.556 105 51.409
 268373 268374 BUsg229 BUsg230 dxr uppS TRUE 0.97 51 723.644
 268374 268375 BUsg230 BUsg231 uppS yaeT FALSE 0.335 193 3.656
 268375 268376 BUsg231 BUsg232 yaeT fabZ TRUE 0.656 76 75.578
 268376 268377 BUsg232 BUsg233 fabZ dnaE FALSE 0.431 32 -52.015
 268379 268380 BUsg235 BUsg236 flhB flhA TRUE 0.998 -25 582.65
 2179464 2179465 BUsg618 BUsg594 rrs FALSE 0.033 97 0
 2179465 400278 BUsg594 BUsg595 tRNA-Ala FALSE 0.292 20 0
 268382 268383 BUsg238 BUsg239 gloB rnhA TRUE 0.914 24 307.478
 268384 400279 BUsg240 BUsg596 dnaQ tRNA-Asp FALSE 0.038 92 0
 400279 268385 BUsg596 BUsg241 tRNA-Asp lpcA FALSE 0.088 61 0
 268385 268386 BUsg241 BUsg242 lpcA gpt FALSE 0.006 104 -28.199
 268386 268387 BUsg242 BUsg243 gpt grpE1 FALSE 0.007 97 -19.949
 268389 268390 BUsg245 BUsg246 smpB yfhC FALSE 0.218 10 -44.588
 268391 268392 BUsg247 BUsg248 acpS era FALSE 0.164 94 -25.261
 268392 268393 BUsg248 BUsg249 era rnc TRUE 0.995 -3 624.102
 268393 268394 BUsg249 BUsg250 rnc lepB TRUE 0.811 138 606.788
 268394 268395 BUsg250 BUsg251 lepB lepA TRUE 0.986 17 439.896
 268396 268397 BUsg252 BUsg253 trmU purB FALSE 0.425 150 157.47
 268397 268398 BUsg253 BUsg255 purB fabI FALSE 0.011 750 -24.001
 268398 268399 BUsg255 BUsg256 fabI rnb FALSE 0.168 194 13.894
 268399 268400 BUsg256 BUsg257 rnb ychE FALSE 0.018 64 -19.084
 268400 2179466 BUsg257 BUsg258 ychE lipB FALSE 0.011 79 -24.9
 2179466 268402 BUsg258 BUsg259 lipB lipA TRUE 0.869 123 379.297
 268402 268403 BUsg259 BUsg260 lipA pyrF FALSE 0.012 95 -32.678
 268403 268404 BUsg260 BUsg261 pyrF ribA FALSE 0.005 125 -25.168
 268405 268406 BUsg262 BUsg263 cls yciA FALSE 0.226 360 -33.522