VIMSS Operon Predictions for Buchnera aphidicola str. APS

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
 62018 62019 BU001 BU002 gidA atpB FALSE 0.182 195 -46.017
 62019 62020 BU002 BU003 atpB atpE TRUE 0.997 37 1056.42
 62020 62021 BU003 BU004 atpE atpF TRUE 0.974 119 935.738
 62021 62022 BU004 BU005 atpF atpH TRUE 1 0 1028.2
 62022 62023 BU005 BU006 atpH atpA TRUE 1 15 1504.945
 62023 62024 BU006 BU007 atpA atpG TRUE 0.999 33 1844.892
 62024 62025 BU007 BU008 atpG atpD TRUE 1 24 1622.686
 62025 62026 BU008 BU009 atpD atpC TRUE 0.999 27 1112.54
 62027 62028 BU010 BU011 gyrB dnaN TRUE 0.73 127 257.995
 62028 62029 BU011 BU012 dnaN dnaA TRUE 0.999 5 956.967
 62030 62031 BU013 BU014 rpmH rnpA TRUE 0.993 13 236.259
 62031 62032 BU014 BU015 rnpA yidC TRUE 0.706 139 211.475
 62032 369950 BU015 BU016 yidC thdF TRUE 0.973 39 418.945
 62034 62035 BU018 BU019 mopB mopA TRUE 0.997 49 1569.45
 62035 62036 BU019 BU020 mopA efp FALSE 0.086 624 -57.35
 62037 62038 BU021 BU022 dnaC dnaT TRUE 0.952 0 35.044
 62038 62039 BU022 BU023 dnaT yhhF FALSE 0.008 97 -9.216
 62040 62041 BU024 BU025 ftsY rpoH FALSE 0.25 163 1.297
 369951 62043 BU026 BU027 glmS glmU TRUE 0.961 70 457.244
 62044 62045 BU028 BU029 yigL cof FALSE 0.339 39 0
 62045 62046 BU029 BU030 cof metE FALSE 0.081 971 0
 62047 62048 BU031 BU032 purH hupA FALSE 0.061 141 -43.14
 62048 62049 BU032 BU033 hupA rpoC FALSE 0.145 735 -39.072
 62049 62050 BU033 BU034 rpoC rpoB TRUE 0.992 78 1065.65
 62050 62051 BU034 BU035 rpoB rplL TRUE 0.954 221 1052.47
 62051 62052 BU035 BU036 rplL rplJ TRUE 0.994 67 1451.793
 62052 62053 BU036 BU037 rplJ rplA TRUE 0.969 266 1134.369
 62053 62054 BU037 BU038 rplA rplK TRUE 1 3 1872.218
 62054 62055 BU038 BU039 rplK nusG TRUE 0.994 48 1433.513
 62055 62056 BU039 BU040 nusG secE TRUE 0.994 3 254.563
 62056 2132577 BU040 BU610 secE FALSE 0.076 314 0
 2132577 2132578 BU610 BU611 TRUE 0.764 16 0
 2132578 2132579 BU611 BU612 TRUE 0.645 23 0
 2132579 2132580 BU612 BU613 TRUE 0.764 16 0
 2132580 62057 BU613 BU045 murB FALSE 0.074 139 0
 62060 62061 BU048 BU049 argC argB TRUE 0.993 21 220.521
 62061 62062 BU049 BU050 argB argG TRUE 0.963 30 43.488
 62062 62063 BU050 BU051 argG argH TRUE 0.975 72 533.439
 62063 62064 BU051 BU052 argH yibN FALSE 0.011 82 -22.349
 62064 62065 BU052 BU053 yibN secB TRUE 0.738 107 292.113
 62065 62066 BU053 BU054 secB cysE FALSE 0.016 102 -28.555
 62067 62068 BU055 BU056 rpoD dnaG TRUE 0.796 168 310.858
 62068 62069 BU056 BU057 dnaG rpsU TRUE 0.762 81 186.823
 62071 62072 BU059 BU060 ribB yb3052 FALSE 0.046 272 -2.285
 62074 62075 BU062 BU063 bacA crr FALSE 0.078 86 -18.931
 62075 62076 BU063 BU064 crr ptsI TRUE 0.92 50 140.394
 62076 62077 BU064 BU065 ptsI ptsH TRUE 0.954 149 624.365
 62077 62078 BU065 BU066 ptsH cysK FALSE 0.199 149 58.902
 2132581 2132582 BU614 BU615 TRUE 0.533 29 0
 62080 2132583 BU070 BU616 gltX FALSE 0.073 173 0
 62082 62083 BU073 BU074 fliF fliG TRUE 0.999 -3 563.987
 62083 62084 BU074 BU075 fliG fliH TRUE 0.987 -7 28.489
 62084 62085 BU075 BU076 fliH fliI TRUE 0.971 -42 25.909
 62085 62086 BU076 BU077 fliI fliJ TRUE 0.914 30 52.564
 62086 62087 BU077 BU078 fliJ yba1 TRUE 0.814 9 0
 62087 62088 BU078 BU079 yba1 fliK FALSE 0.112 91 0
 62088 62089 BU079 BU080 fliK fliM FALSE 0.191 61 0
 62089 62090 BU080 BU081 fliM fliN TRUE 0.971 -7 45.955
 62090 62091 BU081 BU082 fliN fliP TRUE 0.951 12 0.009
 62091 62092 BU082 BU083 fliP fliQ TRUE 0.658 72 0.009
 62092 62093 BU083 BU084 fliQ fliR TRUE 0.999 0 731.765
 62094 62095 BU085 BU086 rpmG rpmB TRUE 0.998 11 549.675
 2132584 62099 BU090 BU091 rnpB yraL FALSE 0.135 80 0
 62100 62101 BU092 BU093 fabB talA FALSE 0.006 240 -22.461
 62101 62102 BU093 BU094 talA tktB TRUE 0.644 55 7.245
 62102 62103 BU094 BU095 tktB dapE FALSE 0.007 105 -26.768
 62104 62105 BU096 BU097 dapA aroC FALSE 0.145 576 -41.95
 62106 62107 BU098 BU099 yb2331 hisG FALSE 0.006 325 -17.834
 62107 62108 BU099 BU100 hisG hisD TRUE 0.998 9 349.165
 62108 62109 BU100 BU101 hisD hisC TRUE 0.999 -3 531.045
 62109 62110 BU101 BU102 hisC hisB TRUE 0.996 -10 240.82
 62110 62111 BU102 BU103 hisB hisH TRUE 0.996 0 255.41
 62111 62112 BU103 BU104 hisH hisA TRUE 1 5 1238.453
 62112 62113 BU104 BU105 hisA hisF TRUE 1 -21 1139.282
 62113 62114 BU105 BU106 hisF hisI TRUE 0.999 -6 470.301
 62114 62115 BU106 BU107 hisI gnd FALSE 0.048 359 -0.697
 62115 62116 BU107 BU108 gnd dcd FALSE 0.006 163 -23.265
 62116 62117 BU108 BU109 dcd metG FALSE 0.027 148 -33.325
 62118 2132585 BU110 BU617 mesJ TRUE 0.533 29 0
 62119 62120 BU112 BU113 ribE rnfA FALSE 0.045 37 -24.795
 62120 62121 BU113 BU114 rnfA rnfB TRUE 0.996 3 227.761
 62121 62122 BU114 BU115 rnfB rnfC TRUE 0.586 163 46.098
 62122 369949 BU115 BU116 rnfC ydgO TRUE 0.922 48 149.778
 369949 62124 BU116 BU117 ydgO rnfG FALSE 0.237 149 0
 62124 62125 BU117 BU118 rnfG ydgQ TRUE 0.96 -25 0
 62125 62126 BU118 BU119 ydgQ nth TRUE 0.99 11 189.02
 62126 369942 BU119 BU120 nth priA TRUE 0.617 23 -27.479
 369942 62128 BU120 BU121 priA tyrS FALSE 0.006 160 -25.125
 62130 62131 BU123 BU124 yb1688 aroH FALSE 0.006 352 -27.492
 62131 62132 BU124 BU125 aroH thrS FALSE 0.006 152 -31.464
 62132 62133 BU125 BU126 thrS infC TRUE 0.999 4 692.442
 62133 62134 BU126 BU127 infC rpmI TRUE 0.98 87 1047.496
 62134 62135 BU127 BU128 rpmI rplT TRUE 0.998 43 1753.881
 62135 62136 BU128 BU129 rplT pheS TRUE 0.947 195 732.089
 62136 62137 BU129 BU130 pheS pheT TRUE 1 10 1480.648
 62137 62138 BU130 BU131 pheT himA TRUE 0.997 5 419.496
 62138 62139 BU131 BU132 himA queA FALSE 0.031 42 -24.877
 62139 62140 BU132 BU133 queA tgt TRUE 0.996 41 748.172
 62140 62141 BU133 BU134 tgt yajC TRUE 0.989 25 333.585
 62142 369941 BU135 BU136 glyS glyQ TRUE 1 -25 1070.225
 62144 62145 BU137 BU138 nfo rplY FALSE 0.081 35 -17.552
 62147 62148 BU140 BU141 surA ksgA TRUE 0.754 54 166.503
 62148 62149 BU141 BU142 ksgA apaH TRUE 0.82 45 247.958
 62150 62151 BU143 BU144 folA carB FALSE 0.009 90 -30.619
 62151 62152 BU144 BU145 carB carA TRUE 1 14 1115.399
 62152 62153 BU145 BU146 carA dapB TRUE 0.595 210 189.223
 62153 62154 BU146 BU147 dapB lytB FALSE 0.256 4 -19.493
 62154 62155 BU147 BU148 lytB lspA TRUE 0.781 65 251.451
 62155 62156 BU148 BU149 lspA ileS TRUE 0.998 0 609.994
 62156 62157 BU149 BU150 ileS ribF TRUE 0.997 17 563.707
 62159 62160 BU152 BU153 dnaJ dnaK TRUE 0.985 113 1320.993
 62161 62162 BU154 BU155 nuoA nuoB TRUE 0.965 34 137.519
 62162 62163 BU155 BU156 nuoB nuoCD TRUE 0.841 91 159.133
 62163 62164 BU156 BU157 nuoCD nuoE TRUE 0.99 23 178.713
 62164 62165 BU157 BU158 nuoE nuoF TRUE 0.999 -3 514.172
 62165 62166 BU158 BU159 nuoF nuoG TRUE 0.889 94 210.233
 62166 62167 BU159 BU160 nuoG nuoH TRUE 0.996 12 216.598
 62167 62168 BU160 BU161 nuoH nuoI TRUE 0.996 25 331.207
 62168 62169 BU161 BU162 nuoI nuoJ TRUE 0.997 10 284.004
 62169 62170 BU162 BU163 nuoJ nuoK TRUE 0.998 31 1048.089
 62170 62171 BU163 BU164 nuoK nuoL TRUE 0.999 -3 639.568
 62171 62172 BU164 BU165 nuoL nuoM TRUE 0.975 97 659.206
 62172 62173 BU165 BU166 nuoM nuoN TRUE 0.993 58 907.427
 62173 62174 BU166 BU167 nuoN folC FALSE 0.053 1126 -40.517
 369960 62176 BU169 BU170 prsA ychB TRUE 0.88 120 507.335
 62177 62178 BU171 BU172 prfA hemK TRUE 1 -3 1265.797
 62178 62179 BU172 BU173 hemK ychA FALSE 0.254 160 119.37
 62181 62182 BU175 BU176 ackA pta TRUE 0.957 45 272.123
 62183 62184 BU177 BU178 yfaE nrdB TRUE 0.98 3 74.987
 62184 62185 BU178 BU179 nrdB nrdA TRUE 0.988 68 688.238
 62185 62186 BU179 BU180 nrdA gyrA FALSE 0.128 73 -44.096
 62191 62192 BU185 BU186 yfjB smpA FALSE 0.006 133 -19.742
 62192 62193 BU186 BU187 smpA ydhD FALSE 0.017 537 -14.652
 62195 62196 BU189 BU190 sodA pth FALSE 0.01 188 -34.809
 62196 62197 BU190 BU191 pth ychF TRUE 0.985 41 505.218
 62198 62199 BU192 BU193 thrC thrB TRUE 0.996 7 270.001
 62199 62200 BU193 BU194 thrB thrA TRUE 0.986 21 216.076
 62202 62203 BU196 BU197 panC panB TRUE 1 15 778.201
 62203 62204 BU197 BU198 panB dksA FALSE 0.048 116 -36.39
 62205 62206 BU199 BU200 truA mrcB FALSE 0.014 72 -24.117
 62206 62207 BU200 BU201 mrcB secA FALSE 0.013 230 -25.823
 62207 62208 BU201 BU202 secA mutT TRUE 0.626 76 104.029
 62210 62211 BU204 BU205 guaC aceE FALSE 0.007 227 -19.546
 62211 369957 BU205 BU206 aceE aceF TRUE 0.993 4 213.973
 369957 62213 BU206 BU207 aceF lpdA TRUE 0.955 45 296.795
 62214 62215 BU208 BU209 speD speE TRUE 0.966 19 53.878
 62215 62216 BU209 BU210 speE pfs FALSE 0.006 276 -21.095
 62216 62217 BU210 BU211 pfs yadR FALSE 0.016 64 -31.652
 62217 62218 BU211 BU212 yadR ftsZ FALSE 0.006 234 -33.573
 62218 62219 BU212 BU213 ftsZ ftsA TRUE 0.986 58 837.604
 62219 62220 BU213 BU215 ftsA murC TRUE 0.611 1115 77.651
 62220 62221 BU215 BU216 murC murG TRUE 0.995 43 1133.546
 62221 62222 BU216 BU217 murG ftsW TRUE 0.999 -3 875.649
 62222 62223 BU217 BU218 ftsW murD TRUE 0.999 -3 847.406
 62223 62224 BU218 BU219 murD mraY TRUE 1 0 1336.751
 62224 62225 BU219 BU220 mraY murF TRUE 1 -6 1166.909
 62225 62226 BU220 BU221 murF murE TRUE 1 -3 1073.23
 62226 62227 BU221 BU222 murE ftsI TRUE 1 1 1102.485
 62227 62228 BU222 BU223m ftsI ftsL TRUE 0.531 65 41.864
 62228 62229 BU223m BU224 ftsL yabC TRUE 0.966 3 52.551
 62229 62230 BU224 BU225 yabC ilvH FALSE 0.02 122 -35.422
 62230 62231 BU225 BU226 ilvH ilvI TRUE 1 5 1238.284
 62233 62234 BU229 BU230 dapD map FALSE 0.098 61 -24.548
 62235 62236 BU231 BU232 rpsB tsf TRUE 0.991 77 1374.482
 62236 62237 BU232 BU233 tsf pyrH TRUE 0.987 51 941.533
 62237 62238 BU233 BU234 pyrH frr TRUE 0.989 81 1629.326
 62238 62239 BU234 BU235 frr dxr TRUE 0.736 83 59.38
 62239 62240 BU235 BU236 dxr uppS TRUE 0.932 93 772.057
 62240 62241 BU236 BU237 uppS yaeT FALSE 0.061 234 -1.663
 62241 62242 BU237 BU238 yaeT dnaE FALSE 0.28 37 -1.269
 62244 369953 BU240 BU241 flhB flhA TRUE 0.999 -7 595.293
 2132586 2132587 BU243 BU618 rrs FALSE 0.081 113 0
 2132587 2132588 BU618 BU619 TRUE 0.779 15 0
 62248 2132589 BU248 BU620 dnaQ FALSE 0.166 69 0
 2132589 62249 BU620 BU250 lpcA FALSE 0.122 84 0
 62249 369952 BU250 BU251 lpcA gpt FALSE 0.007 107 -24.561
 369952 62251 BU251 BU252 gpt grpE1 FALSE 0.066 101 -0.205
 62253 62254 BU254 BU255 smpB yfhC TRUE 0.67 9 -41.583
 62255 62256 BU256 BU257 acpS era FALSE 0.18 125 -18.688
 62256 62257 BU257 BU258 era rnc TRUE 0.999 -3 673.387
 62257 62258 BU258 BU259 rnc lepB TRUE 0.917 131 624.155
 62258 62259 BU259 BU260 lepB lepA TRUE 0.996 16 498.293
 369944 62261 BU261 BU262 trmU ycfC TRUE 0.957 36 231.927
 62261 62262 BU262 BU263 ycfC purB TRUE 0.913 39 205.306
 62262 62263 BU263 BU264 purB mltE FALSE 0.302 24 -3.725
 62263 62264 BU264 BU265 mltE fabI FALSE 0.032 114 -0.703
 62264 62265 BU265 BU266 fabI rnb FALSE 0.188 187 18.064
 62265 62266 BU266 BU267 rnb ychE FALSE