VIMSS Operon Predictions for Actinobacillus pleuropneumoniae L20

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

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 Gene1 Gene2 SysName1 SysName2 Name1 Name2 bOp pOp Sep GNMinus
 2123336 2123337 APL_0001 APL_0002 dnaA dnaN TRUE 0.999 17 1109.966
 2123337 2123338 APL_0002 APL_0003 dnaN recF TRUE 0.86 334 1011.278
 2123342 2123343 APL_0007 APL_0008 lpxB sohB FALSE 0.465 30 -12.362
 2123343 2123344 APL_0008 APL_0009 sohB FALSE 0.049 235 -10.729
 2123344 2123345 APL_0009 APL_0010 mraW TRUE 0.994 26 1210.34
 2123345 2123346 APL_0010 APL_0011 mraW ftsL TRUE 0.989 13 211.666
 2123346 2123347 APL_0011 APL_0012 ftsL ftsI TRUE 0.927 4 13.328
 2123347 2123348 APL_0012 APL_0013 ftsI murE TRUE 0.991 24 223.803
 2123348 2123349 APL_0013 APL_0014 murE murF TRUE 0.969 215 1147.793
 2123349 2123350 APL_0014 APL_0015 murF mraY TRUE 0.995 97 1223.753
 2123350 2123351 APL_0015 APL_0016 mraY murD TRUE 0.996 84 1393.658
 2123351 2123352 APL_0016 APL_0017 murD ftsW TRUE 0.994 2 933.175
 2123352 2123353 APL_0017 APL_0018 ftsW murG TRUE 0.889 155 1001.024
 2123353 2123354 APL_0018 APL_0019 murG murC TRUE 0.989 52 1168.045
 2123354 2123355 APL_0019 APL_0020 murC ddlB TRUE 0.99 108 522.597
 2123355 2123356 APL_0020 APL_0021 ddlB ftsQ TRUE 0.846 141 153.731
 2123356 2123357 APL_0021 APL_0022 ftsQ ftsA TRUE 0.978 26 228.352
 2123357 2123358 APL_0022 APL_0023 ftsA ftsZ TRUE 0.993 39 1022.035
 2123358 2123359 APL_0023 APL_0024 ftsZ lpxC TRUE 0.973 34 368.65
 2123359 2123360 APL_0024 APL_0025 lpxC recN FALSE 0.155 162 -5.707
 2123361 2123362 APL_0026 APL_0027 TRUE 0.958 0 37.408
 2123362 2123363 APL_0027 APL_0028 TRUE 0.989 3 47.189
 2123363 2123364 APL_0028 APL_0029 TRUE 0.929 94 41.634
 2123364 2123365 APL_0029 APL_0030 prfC FALSE 0.068 194 -0.978
 2123366 2123367 APL_0031 APL_0032 yhaH TRUE 0.771 47 4.696
 2123367 2123368 APL_0032 APL_0033 yhaH pth FALSE 0.199 127 -2.569
 2123368 2123369 APL_0033 APL_0034 pth engD TRUE 0.973 109 541.687
 2123369 2123370 APL_0034 APL_0035 engD FALSE 0.322 72 -2.773
 2123371 2123372 APL_0036 APL_0037 slyB TRUE 0.825 31 0.014
 2123372 2123373 APL_0037 APL_0038 slyB TRUE 0.893 27 6.872
 2123374 2123375 APL_0039 APL_0040 argS yhbZ FALSE 0.112 144 -29.795
 2123375 2123376 APL_0040 APL_0041 yhbZ FALSE 0.399 75 -0.91
 2123377 2123378 APL_0042 APL_0043 rlmB pssA FALSE 0.202 79 -10.271
 2123378 2123379 APL_0043 APL_0044 pssA ileS FALSE 0.065 152 -10.076
 2123379 2123380 APL_0044 APL_0045 ileS ribF TRUE 0.95 61 582.807
 2123381 2123382 APL_0046 APL_0047 nadR TRUE 0.944 -3 15.238
 2123382 2123383 APL_0047 APL_0048 arcA FALSE 0.107 173 -1.412
 2123383 2123384 APL_0048 APL_0049 arcA FALSE 0.336 52 -4.213
 2123385 2123386 APL_0050 APL_0051 FALSE 0.114 238 0
 2123387 2123388 APL_0052 APL_0053 typA FALSE 0.044 333 -26.225
 2123388 2123389 APL_0053 APL_0054 typA grxA FALSE 0.06 159 -10.102
 2123391 2123392 APL_0056 APL_0057 yicC TRUE 0.933 9 0.925
 2123393 2123394 APL_0058 APL_0059 yfhL narP FALSE 0.096 146 -12.307
 2123395 2123396 APL_0060 APL_0061 yibK FALSE 0.221 58 -12.068
 2123398 2123399 APL_2109 APL_2047 TRUE 0.517 87 0
 2123399 2123400 APL_2047 APL_2048 TRUE 0.583 52 0
 2123400 2123401 APL_2048 APL_2115 FALSE 0.105 267 0
 2123401 2123402 APL_2115 APL_2121 FALSE 0.194 166 0
 2123402 2123403 APL_2121 APL_0063 dppA FALSE 0.089 388 0
 2123403 2123404 APL_0063 APL_0064 dppA dppA TRUE 0.567 168 1.929
 2123404 2123405 APL_0064 APL_0065 dppA dppB TRUE 0.96 128 442.714
 2123405 2123406 APL_0065 APL_0066 dppB dppC TRUE 0.988 78 658.525
 2123406 2123407 APL_0066 APL_0067 dppC dppD TRUE 0.998 11 428.348
 2123407 2123408 APL_0067 APL_0068 dppD dppF TRUE 1 13 737.448
 2123409 2123410 APL_0069 APL_0070 psiE FALSE 0.418 78 -0.071
 2123410 2123411 APL_0070 APL_0071 FALSE 0.492 55 -0.071
 2123411 2123412 APL_0071 APL_0072 ilvE FALSE 0.278 87 -3.622
 2123412 2123413 APL_0072 APL_0073 ilvE ydhD FALSE 0.083 143 -19.188
 2123413 2123414 APL_0073 APL_0074 ydhD recR FALSE 0.219 72 -20.105
 2123414 2123415 APL_0074 APL_0075 recR ybaB TRUE 0.998 11 1210.13
 2123415 2123416 APL_0075 APL_0076 ybaB tonB2 FALSE 0.071 169 -13.199
 2123416 2123417 APL_0076 APL_0077 tonB2 exbD2 TRUE 0.975 10 43.491
 2123417 2123418 APL_0077 APL_0078 exbD2 exbB2 TRUE 0.954 45 69.126
 2123419 2123420 APL_0079 APL_0080 glpE FALSE 0.354 44 -9.399
 2123421 2123422 APL_0081 APL_0082 dhaM dhaL TRUE 0.989 9 226.854
 2123422 2123423 APL_0082 APL_0083 dhaL dhaK TRUE 0.999 2 399.183
 2123424 2123425 APL_0084 APL_0085 trxB kdsB FALSE 0.204 108 -18.006
 2123425 2123426 APL_0085 APL_0086 kdsB FALSE 0.207 124 -3.875
 2123427 2123428 APL_0087 APL_0088 nudC rluE TRUE 0.765 18 -8.486
 2123428 2123429 APL_0088 APL_0089 rluE rhaT TRUE 0.829 4 -1.127
 2123429 2123430 APL_0089 APL_0090 rhaT TRUE 0.636 30 -3.394
 2123430 2123431 APL_0090 APL_0091 pepQ TRUE 0.733 23 -6.355
 2123433 2123434 APL_0093 APL_0094 engB TRUE 0.717 2 -9.079
 2123434 2123435 APL_0094 APL_0095 engB FALSE 0.043 295 -7.879
 2123435 2123436 APL_0095 APL_0096 TRUE 0.534 38 -3.431
 2123436 2123437 APL_0096 APL_0097 ilvD FALSE 0.081 151 -14.433
 2123437 2123438 APL_0097 APL_0098 ilvD ilvM TRUE 0.642 118 48.215
 2123438 2123439 APL_0098 APL_0099 ilvM ilvG TRUE 0.995 21 172.624
 2123440 2123441 APL_0100 APL_0101 nrfA nrfB TRUE 0.969 21 78.386
 2123441 2123442 APL_0101 APL_0102 nrfB nrfC TRUE 0.96 0 78.386
 2123442 2123443 APL_0102 APL_0103 nrfC nrfD TRUE 0.984 0 200.08
 2123443 2123444 APL_0103 APL_0104 nrfD FALSE 0.055 288 -0.65
 2123445 2123446 APL_0105 APL_0106 uraA putA FALSE 0.061 160 -8.529
 2123446 2123447 APL_0106 APL_0107 putA putP TRUE 0.811 103 191.618
 2123447 2123448 APL_0107 APL_0108 putP iclR FALSE 0.022 575 -12.382
 2123448 2123449 APL_0108 APL_0109 iclR TRUE 0.629 -3 -12.142
 2123449 2123450 APL_0109 APL_0110 FALSE 0.491 271 221.696
 2123451 2123452 APL_0111 APL_0112 hemE FALSE 0.223 106 -12.036
 2123452 2123453 APL_0112 APL_0113 hemE TRUE 0.546 124 91.758
 2123453 2123454 APL_0113 APL_0114 hupA TRUE 0.611 136 101.682
 2123456 2123457 APL_0116 APL_0117 bioB FALSE 0.472 96 -0.903
 2123459 2123460 APL_0119 APL_0120 proQ prc TRUE 0.765 92 43.741
 2123460 2123461 APL_0120 APL_0121 prc TRUE 0.632 97 7.853
 2123461 2123462 APL_0121 APL_0122 FALSE 0.387 172 25.416
 2123462 2123463 APL_0122 APL_0123 TRUE 0.983 18 132.253
 2123464 2123465 APL_0124 APL_0125 TRUE 0.845 -3 -0.052
 2123465 2123466 APL_0125 APL_0126 TRUE 0.929 2 13.036
 2123466 2123467 APL_0126 APL_0127 yfeD FALSE 0.239 72 -13.098
 2123467 2123468 APL_0127 APL_0128 yfeD yfeC TRUE 0.997 -7 176.271
 2123468 2123469 APL_0128 APL_0129 yfeC rnhB TRUE 0.602 1 -8.836
 2123469 2123470 APL_0129 APL_0130 rnhB engC TRUE 0.696 23 -17.544
 2123471 2123472 APL_0131 APL_0132 gcvA TRUE 0.693 0 -6.648
 2123472 2123473 APL_0132 APL_0133 cysB TRUE 0.687 0 -7.419
 2123473 2123474 APL_0133 APL_0134 cysB TRUE 0.858 1 -0.317
 2123476 2123477 APL_0136 APL_0137 pyrG FALSE 0.346 103 -1.519
 2123478 2123479 APL_0138 APL_0139 leuD leuC TRUE 1 11 1321.178
 2123480 2123481 APL_0140 APL_0141 TRUE 0.672 128 73.059
 2123481 2123482 APL_0141 APL_0142 glxK TRUE 0.993 11 115.128
 2123482 2123483 APL_0142 APL_0143 glxK TRUE 0.834 19 -9.464
 2123484 2123485 APL_0144 APL_0145 TRUE 0.744 4 -6.368
 2123485 2123486 APL_0145 APL_0146 dusA FALSE 0.303 60 -11.362
 2123487 2123488 APL_0147 APL_0148 rnr1 TRUE 0.998 -13 90.522
 2123490 2123491 APL_0150 APL_0151 nqrA nqrB TRUE 0.999 5 313.95
 2123491 2123492 APL_0151 APL_0152 nqrB nqrC TRUE 0.999 3 320.645
 2123492 2123493 APL_0152 APL_0153 nqrC nqrD TRUE 0.999 0 326.725
 2123493 2123494 APL_0153 APL_0154 nqrD nqrE TRUE 0.999 2 356.462
 2123494 2123495 APL_0154 APL_0155 nqrE nqrF TRUE 0.999 11 320.216
 2123495 2123496 APL_0155 APL_0156 nqrF apbE TRUE 0.582 207 223.57
 2123496 2123497 APL_0156 APL_0157 apbE TRUE 0.988 13 136.016
 2123497 2123498 APL_0157 APL_0158 trmU FALSE 0.211 229 10.061
 2123499 2123500 APL_0159 APL_0160 hcaT proC TRUE 0.916 -3 1.228
 2123501 2123502 APL_0161 APL_0162 rdgC TRUE 0.776 10 -8.777
 2123503 2123504 APL_0163 APL_0164 TRUE 0.94 5 7.049
 2123505 2123506 APL_0165 APL_0166 rnfA rnfB TRUE 0.996 21 281.282
 2123506 2123507 APL_0166 APL_0167 rnfB rnfC TRUE 0.997 -7 226.912
 2123507 2123508 APL_0167 APL_0168 rnfC TRUE 0.757 -7 -10.18
 2123508 2123509 APL_0168 APL_0169 rnfD TRUE 0.776 20 -11.264
 2123509 2123510 APL_0169 APL_0170 rnfD rnfG TRUE 0.997 0 397.097
 2123510 2123511 APL_0170 APL_0171 rnfG rnfE TRUE 0.999 12 374.988
 2123511 2123512 APL_0171 APL_0172 rnfE msbB TRUE 0.934 9 -9.147
 2123514 2123515 APL_0174 APL_0175 tbpA dksA FALSE 0.043 207 -9.841
 2123515 2123516 APL_0175 APL_0176 dksA pcnB FALSE 0.218 143 -3.378
 2123516 2123517 APL_0176 APL_0177 pcnB folK TRUE 0.933 70 442.988
 2123518 2123519 APL_0178 APL_0179 TRUE 0.945 -3 19.627
 2123519 2123520 APL_0179 APL_0180 TRUE 0.843 33 0.147
 2123521 2123522 APL_0181 APL_0182 gloA dnaQ TRUE 0.568 140 96.745
 2123523 2123524 APL_0183 APL_0184 tyrA FALSE 0.032 576 -2.625
 2123524 2123525 APL_0184 APL_0185 tyrA aroF TRUE 0.899 113 180.271
 2123525 2123526 APL_0185 APL_0186 aroF FALSE 0.36 42 -5.716
 2123526 2123527 APL_0186 APL_0187 pykA FALSE 0.219 88 -7.54
 2123528 2123529 APL_0188 APL_0189 sixA dus FALSE 0.033 223 -13.928
 2123529 2123530 APL_0189 APL_0190 dus fis TRUE 0.97 28 225.658
 2123531 2123532 APL_0191 APL_0192 dam FALSE 0.288 65 -4.244
 2123532 2123533 APL_0192 APL_0193 dam aroB TRUE 0.781 -7 -4.758
 2123533 2123534 APL_0193 APL_0194 aroB aroK TRUE 0.984 74 929.289
 2123534 2123535 APL_0194 APL_0195 aroK mrcA FALSE 0.066 262 -21.582
 2123536 2123537 APL_0196 APL_0197 TRUE 0.592 72 0.014
 2123537 2123538 APL_0197 APL_0198 TRUE 0.903 3 0.014
 2123538 2123539 APL_0198 APL_0199 TRUE 0.932 -7 0.147
 2123539 2123540 APL_0199 APL_0200 hofQ TRUE 0.971 12 12.139
 2123540 2123541 APL_0200 APL_0201 hofQ nusB FALSE 0.114 126 -7.779
 2123541 2123542 APL_0201 APL_0202 nusB thiL TRUE 0.94 68 413.399
 2123542 2123543 APL_0202 APL_0203 thiL pgpA TRUE 0.994 13 408.962
 2123543 2123544 APL_0203 APL_0204 pgpA TRUE 0.928 9 6.649
 2123546 2123547 APL_0206 APL_0207 suhB dxs FALSE 0.334 121 -7.086
 2123548 2123549 APL_0208 APL_0209 TRUE 0.813 33 0.014
 2123549 2123550 APL_0209 APL_0210 TRUE 0.946 12 0.014
 2123550 2123551 APL_0210 APL_0211 glyA FALSE 0.367 89 -0.134
 2123551 2123552 APL_0211 APL_0212 glyA pnnK FALSE 0.036 231 -26.829
 2123552 2123553 APL_0212 APL_0213 pnnK FALSE 0.321 91 -2.768
 2123553 2123554 APL_0213 APL_0214 TRUE 0.97 -3 52.623
 3309223 3311393 TRUE 0.86 1 0
 3311393 3309224 TRUE 0.86 1 0
 3309224 3311394 TRUE 0.86 1 0
 3311394 3309225 TRUE 0.86 1 0
 3309225 3311395 TRUE 0.86 1 0
 3311395 3309226 TRUE 0.86 1 0
 3309226 3311396 TRUE 0.86 1 0
 3311396 3309227 TRUE 0.86 1 0
 3309227 3311397 TRUE 0.86 1 0
 3311397 3309228 TRUE 0.86 1 0
 3309228 3311398 TRUE 0.86 1 0
 3311398 3309229 TRUE 0.86 1 0
 3309229 3311399 TRUE 0.86 1 0
 3311399 3309230 TRUE 0.86 1 0
 3309230 3311400 TRUE 0.86 1 0
 3311400 3309231 TRUE 0.86 1 0
 3309231 3311401 TRUE 0.86 1 0
 3311401 3309232 TRUE 0.86 1 0
 3309232 3311402 TRUE 0.86 1 0
 3311402 3309233 TRUE 0.86 1 0
 3309233 3311403 TRUE 0.86 1 0
 3311403 3309234 TRUE 0.86 1 0
 3309234 3311404 TRUE 0.86 1 0
 3311404 3309235 TRUE 0.86 1 0