VIMSS Operon Predictions for Bifidobacterium adolescentis ATCC 15703

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
 2002665 2002666 BAD_0001 BAD_0002 dnaA dnaN FALSE 0.467 497 670.136
 2002666 2002667 BAD_0002 BAD_0003 dnaN recF TRUE 0.996 79 1227.804
 2002667 2002668 BAD_0003 BAD_0004 recF TRUE 0.583 0 7.502
 2002668 2002669 BAD_0004 BAD_0005 gyrB FALSE 0.28 281 7.502
 2002669 2002670 BAD_0005 BAD_0006 gyrB gyrA TRUE 0.993 96 415.354
 2002670 2002671 BAD_0006 BAD_0007 gyrA TRUE 0.956 75 19.971
 2002674 2002675 BAD_t0001 BAD_t0002 alaW alaV FALSE 0.132 2 0
 2002675 2002676 BAD_t0002 BAD_t0003 alaV ileU TRUE 0.809 43 0
 2002678 2002679 BAD_0011 BAD_0012 icfA FALSE 0.413 68 -5.778
 2002679 2002680 BAD_0012 BAD_0013 icfA ribAB FALSE 0.029 464 0
 2002680 2002681 BAD_0013 BAD_0014 ribAB pra TRUE 0.791 70 0
 2002681 2002682 BAD_0014 BAD_0015 pra rps8E FALSE 0.093 256 0
 2002682 2002683 BAD_0015 BAD_0016 rps8E FALSE 0.02 1207 0
 2002683 2002684 BAD_0016 BAD_0017 TRUE 0.603 101 0
 2002684 2002685 BAD_0017 BAD_0018 TRUE 0.718 -3 0
 2002685 2002686 BAD_0018 BAD_0019 FALSE 0.058 309 0
 2002690 2002691 BAD_0023 BAD_0024 FALSE 0.451 145 0.188
 2002692 2002693 BAD_0025 BAD_0026 opuE TRUE 0.906 58 0.402
 2002697 2002698 BAD_0030 BAD_0031 glgP pbp1A TRUE 0.579 105 0
 2002698 2002699 BAD_0031 BAD_0032 pbp1A TRUE 0.836 22 0
 2002699 2002700 BAD_0032 BAD_0033 FALSE 0.088 264 0
 2002702 2002703 BAD_0035 BAD_0036 TRUE 0.795 7 0.402
 2002703 2002704 BAD_0036 BAD_0037 pabA TRUE 0.913 79 0.402
 2002705 2002706 BAD_0038 BAD_0039 pknB pknA TRUE 0.942 -3 0.402
 2002706 2002707 BAD_0039 BAD_0040 pknA pbpA TRUE 0.842 -3 0.402
 2002707 2002708 BAD_0040 BAD_0041 pbpA rodA TRUE 0.998 -7 113.32
 2002708 2002709 BAD_0041 BAD_0042 rodA TRUE 0.946 -3 49.504
 2002709 2002710 BAD_0042 BAD_0043 TRUE 0.968 -3 54.673
 2002710 2002711 BAD_0043 BAD_0044 TRUE 0.989 29 37.473
 2002713 2002714 BAD_0046 BAD_0047 TRUE 0.991 -10 0
 2002715 2002716 BAD_0048 BAD_0049 TRUE 0.752 74 -0.9
 2002716 2002717 BAD_0049 BAD_0050 FALSE 0.412 123 0
 2002717 2002718 BAD_0050 BAD_0051 TRUE 0.846 31 0
 2002719 2002720 BAD_t0004 BAD_0052 leuX FALSE 0.034 421 0
 2002720 2002721 BAD_0052 BAD_0053 ygaT TRUE 0.85 30 0
 2002722 2002723 BAD_0054 BAD_0055 recD TRUE 0.789 71 0
 2002725 2002726 BAD_0057 BAD_0058 degP FALSE 0.024 356 0.402
 2002728 2002729 BAD_0060 BAD_0061 fprA TRUE 0.785 73 0
 2002729 2002730 BAD_0061 BAD_0062 fprA htpX FALSE 0.23 233 -3.059
 2002730 2002731 BAD_0062 BAD_t0005 htpX glyT FALSE 0.049 334 0
 2002731 2002732 BAD_t0005 BAD_0063 glyT FALSE 0.032 433 0
 2002733 2002734 BAD_0064 BAD_0065 pip FALSE 0.396 3 0.402
 2002735 2002736 BAD_0066 BAD_0067 fba purA FALSE 0.437 186 -13.5
 2002736 2002737 BAD_0067 BAD_0068 purA TRUE 0.845 48 -4.186
 2002737 2002738 BAD_0068 BAD_0069 crcB2 FALSE 0.319 141 0
 2002738 2002739 BAD_0069 BAD_0070 crcB2 FALSE 0.024 493 0
 2002739 2002740 BAD_0070 BAD_0071 TRUE 0.72 4 5.925
 2002740 2002741 BAD_0071 BAD_0072 TRUE 0.985 74 29.36
 2002741 2002742 BAD_0072 BAD_0073 LivF TRUE 0.798 2 88.048
 2002742 2002743 BAD_0073 BAD_0074 LivF LivF FALSE 0.425 359 47.625
 2002743 2002744 BAD_0074 BAD_0075 LivF FALSE 0.034 382 0
 2002746 2002747 BAD_0077 BAD_0078 spl FALSE 0.021 807 0
 2002747 2002748 BAD_0078 BAD_0079 spl FALSE 0.168 292 0.188
 2002748 2002749 BAD_0079 BAD_0080 shiA FALSE 0.034 479 -3.41
 2002749 2002750 BAD_0080 BAD_0081 shiA ilvC2 FALSE 0.153 232 -1.567
 2002756 2002757 BAD_0087 BAD_0088 aapA FALSE 0.489 113 0
 2002758 2002759 BAD_0089 BAD_0090 thiG TRUE 0.897 151 116.981
 2002760 2002761 BAD_0091 BAD_0092 FALSE 0.056 184 -1.763
 2002761 2002762 BAD_0092 BAD_0093 TRUE 0.861 127 14.532
 2002762 2002763 BAD_0093 BAD_0094 TRUE 0.995 12 226.392
 2002763 2002764 BAD_0094 BAD_0095 FALSE 0.196 171 -1.408
 2002766 2002767 BAD_0097 BAD_0098 TRUE 0.985 62 7.409
 2002767 2002768 BAD_0098 BAD_0099 TRUE 0.565 267 13.832
 2002768 2002769 BAD_0099 BAD_0100 TRUE 0.99 26 23.79
 2002769 2002770 BAD_0100 BAD_0101 TRUE 0.994 31 57.754
 2002770 2002771 BAD_0101 BAD_0102 TRUE 0.973 18 4.451
 2002771 2002772 BAD_0102 BAD_0103 TRUE 0.858 -3 0.402
 2002773 2002774 BAD_0104 BAD_0105 FALSE 0.361 0 0.281
 2002774 2002775 BAD_0105 BAD_0106 TRUE 0.858 -3 0.402
 2002779 2002780 BAD_0109 BAD_0110 FALSE 0.348 184 0.402
 2002783 2002784 BAD_0113 BAD_0114 amtP glnB TRUE 0.879 2 861.706
 2002784 2002785 BAD_0114 BAD_0115 glnB glnD TRUE 0.698 157 8.091
 2002785 2002786 BAD_0115 BAD_0116 glnD dnaB FALSE 0.005 386 -3.547
 2002786 2002787 BAD_0116 BAD_0117 dnaB FALSE 0.167 2 -2.259
 2002787 2002788 BAD_0117 BAD_0118 TRUE 0.991 66 146.503
 2002788 2002789 BAD_0118 BAD_0119 TRUE 0.865 68 0.188
 2002789 2002790 BAD_0119 BAD_0120 FALSE 0.017 515 0.188
 2002790 2002791 BAD_0120 BAD_0121 FALSE 0.142 214 0
 2002791 2002792 BAD_0121 BAD_0122 FALSE 0.378 134 0
 2002792 2002793 BAD_0122 BAD_0123 FALSE 0.022 504 0
 2002794 2002795 BAD_0124 BAD_0125 upp FALSE 0.018 355 -2.089
 2002795 2002796 BAD_0125 BAD_0126 mutT1 FALSE 0.168 2 -0.229
 2002796 2002797 BAD_0126 BAD_0127 mutT1 ppk TRUE 0.876 108 45.396
 2002798 2002799 BAD_0128 BAD_0129 TRUE 0.994 -19 0.188
 2002799 2002800 BAD_0129 BAD_0130 FALSE 0.214 0 0
 2002800 2002801 BAD_0130 BAD_0131 TRUE 0.718 -3 0
 2002801 2002802 BAD_0131 BAD_0132 FALSE 0.084 267 0
 2002802 2002803 BAD_0132 BAD_0133 FALSE 0.217 3 0
 2002803 2002804 BAD_0133 BAD_0134 TRUE 0.877 53 0.188
 2002804 2002805 BAD_0134 BAD_0135 TRUE 0.897 23 -0.022
 2002807 2002808 BAD_0137 BAD_0138 dnaX recR TRUE 0.95 117 41.145
 2002808 2002809 BAD_0138 BAD_0139 recR askA FALSE 0.087 120 -3.497
 2002809 2002810 BAD_0139 BAD_0140 askA askB TRUE 0.757 117 0.402
 2002812 2002813 BAD_0142 BAD_0143 pknB TRUE 0.793 69 0
 2002815 2002816 BAD_0145 BAD_0146 FALSE 0.09 259 0
 2002817 2002818 BAD_0147 BAD_0148 TRUE 0.985 -7 0
 2002819 2002820 BAD_0149 BAD_0150 TRUE 0.7 10 0
 2002820 2002821 BAD_0150 BAD_0151 TRUE 0.718 -3 0
 2002821 2002822 BAD_0151 BAD_0152 TRUE 0.837 33 0
 2002822 2002823 BAD_0152 BAD_0153 FALSE 0.131 301 -0.012
 2002823 2002824 BAD_0153 BAD_0154 TRUE 0.988 88 56.734
 2002824 2002825 BAD_0154 BAD_0155 TRUE 0.926 0 270.082
 2002825 2002826 BAD_0155 BAD_0156 TRUE 0.944 8 3.479
 2002830 2002831 BAD_0160 BAD_0161 topA TRUE 0.753 106 0.402
 2002831 2002832 BAD_0161 BAD_0162 topA FALSE 0.361 122 -4.882
 2002832 2002833 BAD_0162 BAD_0163 TRUE 0.976 -3 33.088
 2002834 2002835 BAD_0164 BAD_0165 rbsR FALSE 0.152 208 0
 2002836 2002837 BAD_0166 BAD_0167 ptsI FALSE 0.324 138 -0.628
 2002837 2002838 BAD_0167 BAD_0168 pepD TRUE 0.653 109 0.097
 2002838 2002839 BAD_0168 BAD_0169 pepD fhs FALSE 0.233 190 -0.795
 2002843 2002844 BAD_0173 BAD_0174 TRUE 0.868 84 0.402
 2002846 2002847 BAD_0176 BAD_t0007 gltX gluT FALSE 0.165 199 0
 2002847 2002848 BAD_t0007 BAD_t0008 gluT glnT TRUE 0.825 36 0
 2002848 2002849 BAD_t0008 BAD_0177 glnT FALSE 0.242 168 0
 2002851 2002852 BAD_0179 BAD_0180 leuC leuD TRUE 0.996 90 1471.048
 2002852 2002853 BAD_0180 BAD_0181 leuD FALSE 0.026 402 -0.302
 2002853 2002854 BAD_0181 BAD_0182 FALSE 0.156 193 0
 2002854 2002855 BAD_0182 BAD_0183 murA FALSE 0.178 96 -3.484
 2002855 2002856 BAD_0183 BAD_0184 murA FALSE 0.072 331 1.465
 2002856 2002857 BAD_0184 BAD_0185 TRUE 0.524 172 3.632
 2002857 2002858 BAD_0185 BAD_0186 ddlA TRUE 0.968 75 35.844
 2002858 2002859 BAD_0186 BAD_0187 ddlA FALSE 0.155 232 -0.977
 2002859 2002860 BAD_0187 BAD_0188 TRUE 0.769 2 190.259
 2002860 2002861 BAD_0188 BAD_0189 TRUE 0.991 48 254.289
 2002861 2002862 BAD_0189 BAD_0190 msiK TRUE 0.983 -3 129.017
 2002862 2002863 BAD_0190 BAD_0191 msiK FALSE 0.116 196 0.188
 2002865 2002866 BAD_0193 BAD_0194 FALSE 0.018 337 -1.763
 2002866 2002867 BAD_0194 BAD_0195 FALSE 0.48 156 0.402
 2002867 2002868 BAD_0195 BAD_0196 FALSE 0.249 105 -1.763
 2002869 2002870 BAD_0197 BAD_0198 TRUE 0.753 187 15.101
 2002870 2002871 BAD_0198 BAD_0199 TRUE 0.989 83 321.21
 2002873 2002874 BAD_0201 BAD_0202 FALSE 0.132 217 0
 2002875 2002876 BAD_0203 BAD_0204 rpmB recG TRUE 0.604 143 -0.433
 2002876 2002877 BAD_0204 BAD_0205 recG TRUE 0.891 6 10.471
 2002878 2002879 BAD_0206 BAD_0207 trmD TRUE 0.986 93 1275.437
 2002879 2002880 BAD_0207 BAD_0208 TRUE 0.995 22 296.038
 2002880 2002881 BAD_0208 BAD_0209 rpsP TRUE 0.657 3 59.643
 2002883 2002884 BAD_0211 BAD_0212 ffh cysS TRUE 0.873 56 -42.185
 2002885 2002886 BAD_0213 BAD_0214 FALSE 0.12 312 0.402
 2002886 2002887 BAD_0214 BAD_0215 FALSE 0.067 288 0
 2002888 2002889 BAD_0216 BAD_0217 FALSE 0.36 3 0
 2002890 2002891 BAD_0218 BAD_0219 TRUE 0.958 78 11.878
 2002892 2002893 BAD_0220 BAD_0221 ilvN ilvB1 TRUE 0.998 33 1485.72
 2002893 2002894 BAD_0221 BCD_0222 ilvB1 rncS FALSE 0.073 302 -14.558
 2002894 2002895 BCD_0222 BAD_0223 rncS TRUE 0.718 -3 0
 2002895 2002896 BAD_0223 BAD_0224 rpmF FALSE 0.13 224 0
 2002896 2002897 BAD_0224 BAD_0225 rpmF TRUE 0.97 96 53.206
 2002897 2002898 BAD_0225 BAD_0226 TRUE 0.884 56 0.214
 2002900 2002901 BAD_0228 BAD_0229 FALSE 0.404 5 0
 2002902 2002903 BAD_t0009 BAD_t0010 thrU leuT TRUE 0.652 93 0
 2002903 2002904 BAD_t0010 BAD_0230 leuT FALSE 0.132 2 0
 2002904 2002905 BAD_0230 BAD_0231 pgi FALSE 0.03 273 -0.041
 2002905 2002906 BAD_0231 BAD_0232 pgi FALSE 0.104 362 -10.873
 2002906 2002907 BAD_0232 BAD_0233 TRUE 0.796 67 0
 2002907 2002908 BAD_0233 BAD_0234 FALSE 0.103 247 0
 2002908 2002909 BAD_0234 BAD_0235 FALSE 0.296 129 -2.12
 2002909 2002910 BAD_0235 BAD_0236 TRUE 0.884 -3 4.677
 2002912 2002913 BAD_0238 BAD_0239 dapE FALSE 0.012 435 -1.336
 2002913 2002914 BAD_0239 BAD_0240 rplU TRUE 0.844 145 22.195
 2002914 2002915 BAD_0240 BAD_0241 rplU rpmA TRUE 0.998 40 1722.404
 2002915 2002916 BAD_0241 BAD_0242 rpmA obg TRUE 0.989 77 269.862
 2002916 2002917 BAD_0242 BAD_0243 obg proB TRUE 0.982 83 86.441
 2002917 2002918 BAD_0243 BAD_0244 proB aspC TRUE 0.639 124 -9.012
 2002920 2002921 BAD_0245 BAD_0246 secE nusG TRUE 0.981 25 16.847
 2002921 2002922 BAD_0246 BAD_0247 nusG rplK TRUE 0.526 345 149.24
 2002922 2002923 BAD_0247 BAD_0248 rplK rplA TRUE 0.998 15 1977.716
 2002925 2002926 BAD_0250 BAD_0251 TRUE 0.898 72 0.402
 2002927 2002928 BAD_0252 BAD_0253 xerD TRUE 0.772 76 0
 2002929 2002930 BAD_0254 BAD_0255 pccB TRUE 0.981 -3 5.608
 2002930 2002931 BAD_0255 BAD_0256 pccB fas TRUE 0.905 75 -1.886
 2002931 2002932 BAD_0256 BAD_0257 fas TRUE 0.684 159 39.761
 2002932 2002933 BAD_0257 BAD_t0012 glyU TRUE 0.72 86 0
 2002933 2002934 BAD_t0012 BAD_0258 glyU FALSE 0.309 150 0
 2002934 2002935 BAD_0258 BAD_0259 rpsO FALSE 0.41 155 0.188
 2002935 2002936 BAD_0259 BAD_0260 rpsO pnpA TRUE 0.879 230 1515.967
 2002936 2002937 BAD_0260 BAD_0261 pnpA lemA FALSE 0.018 303 -8.962
 2002937 2002938 BAD_0261 BAD_0262 lemA TRUE 0.828 139 8.641
 2002938 2002939 BAD_0262 BAD_0263 TRUE 0.795 68 0
 2002939 2002940 BAD_0263 BAD_0264 FALSE 0.053 238 -1.458
 2002942 2002943 BAD_0266 BAD_0267 yisV TRUE 0.524 19 -1.763
 2002943 2002944 BAD_0267 BAD_0268 TRUE 0.91 55 0.402
 2002944 2002945 BAD_0268 BAD_0269 ispD TRUE 0.874 44 -0.074
 2002945 2002946 BAD_0269 BAD_0270 ispD pcp TRUE 0.834 68 -3.406
 2002946 2002947 BAD_0270 BAD_0271 pcp FALSE 0.218 235 0.319
 2002947 2002948 BAD_0271 BAD_0272 pepC2 TRUE 0.926 23 0.