VIMSS Operon Predictions for Aeropyrum pernix K1

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
 2754 2755 APE_0001 APE_0002 FALSE 0.072 0 0
 2755 2756 APE_0002 APE_0004 FALSE 0.394 -16 -0.115
 2757 2758 APE_0006.1 APE_0007.1 FALSE 0.036 1069 0
 2759 2760 APE_0009.1 APE_0010.1 FALSE 0.063 155 0
 2761 2762 APE_0011.1 APE_0012 fba TRUE 0.968 19 -3.134
 2762 2763 APE_0012 APE_0013.1 ilvD FALSE 0.218 151 -17.985
 2765 2766 APE_0017.1 APE_0020.1 TRUE 0.984 18 6.066
 2766 2767 APE_0020.1 APE_0023.1 FALSE 0.097 72 -0.393
 2767 2768 APE_0023.1 APE_0024.1 FALSE 0.167 112 0
 2768 2769 APE_0024.1 APE_0025.1 FALSE 0.126 -3 0
 2770 2771 APE_0026 APE_0028 TRUE 0.998 -72 1.609
 2771 2772 APE_0028 APE_0031.1 TRUE 0.865 12 0
 2772 2773 APE_0031.1 APE_0033.1 pckA FALSE 0.029 60 -0.035
 2773 2774 APE_0033.1 APE_0035.1 pckA FALSE 0.08 127 0
 2774 2775 APE_0035.1 APE_0038.1 TRUE 0.999 15 32.514
 2775 2776 APE_0038.1 APE_0040.1 TRUE 0.999 15 132.998
 2776 2777 APE_0040.1 APE_0043.1 TRUE 0.994 8 34.886
 2777 2778 APE_0043.1 APE_0045 pstS FALSE 0.003 182 -2.301
 2778 2779 APE_0045 APE_0047.1 pstS pstC TRUE 1 13 725.614
 2779 2780 APE_0047.1 APE_0048 pstC pstA TRUE 0.989 -7 929.671
 2780 2781 APE_0048 APE_0050 pstA pstB TRUE 0.732 0 869.321
 2781 2782 APE_0050 APE_0051 pstB TRUE 0.753 0 625.721
 2783 2784 APE_0052.1 APE_0053.1 FALSE 0.195 95 0
 2784 2785 APE_0053.1 APE_0054.1 FALSE 0.096 181 0
 2785 2786 APE_0054.1 APE_0055 FALSE 0.211 86 0
 2786 2787 APE_0055 APE_0056.1 FALSE 0.008 69 -0.767
 2788 2791 APE_0057.1 APE_0060.1 TRUE 0.933 13 0
 2791 2792 APE_0060.1 APE_0061.1 FALSE 0.307 115 1.069
 2792 2793 APE_0061.1 APE_0063 FALSE 0.499 98 2.284
 2793 2794 APE_0063 APE_0065 FALSE 0.26 -3 1.538
 2794 2795 APE_0065 APE_0067.1 TRUE 0.997 16 8.223
 2795 1786878 APE_0067.1 APE_0067a FALSE 0.198 94 0
 1786878 2797 APE_0067a APE_0069.1 dut FALSE 0.036 207 -0.079
 2798 2799 APE_0070.1 APE_0071.1 FALSE 0.063 263 0
 2800 2801 APE_0072 APE_0073.1 FALSE 0.128 76 0
 2807 2808 APE_0080.1 APE_0082.1 TRUE 0.825 42 3.064
 2808 2810 APE_0082.1 APE_0084.1 FALSE 0.129 64 -0.309
 2810 2811 APE_0084.1 APE_0085.1 FALSE 0.027 71 -0.964
 1786880 2812 APE_0085a APE_0086 FALSE 0.212 85 0
 2814 2815 APE_0088.1 APE_0089.1 FALSE 0.014 711 -0.328
 2815 2816 APE_0089.1 APE_0091 TRUE 0.995 15 64.647
 2817 2818 APE_0092.1 APE_0093.1 FALSE 0.173 108 0
 2822 2823 APE_0097.1 APE_0099 FALSE 0.161 115 0
 2825 2826 APE_0103.1 APE_0104.1 TRUE 0.771 45 2.86
 2827 2828 APE_0104a.1 APE_0105 fdxA FALSE 0.139 54 -0.744
 2829 2830 APE_0106.1 APE_0107 herA TRUE 0.59 42 0
 2830 2831 APE_0107 APE_0109.1 herA FALSE 0.322 -16 -0.831
 2831 2832 APE_0109.1 APE_0110 TRUE 0.945 27 4.495
 2832 2833 APE_0110 APE_0113 TRUE 0.992 7 49.276
 2833 2834 APE_0113 APE_0113a rpl40e FALSE 0.003 154 -1.01
 2834 1786881 APE_0113a APE_0115.1 rpl40e fen FALSE 0.008 70 -2.628
 2836 1786882 APE_0116.1 APE_0116a FALSE 0.071 234 0
 2838 2839 APE_0119 APE_0121 radA TRUE 0.819 -24 0
 2839 2840 APE_0121 APE_0122.1 FALSE 0.348 54 0
 2840 2841 APE_0122.1 APE_0124 FALSE 0.234 4 -1.559
 2841 2842 APE_0124 APE_0125.1 FALSE 0.135 137 0
 2842 2843 APE_0125.1 APE_0126.1 TRUE 0.671 5 0
 2843 2844 APE_0126.1 APE_0127 TRUE 0.894 8 0
 2844 2845 APE_0127 APE_0129.1 TRUE 0.984 -34 2.89
 2845 2846 APE_0129.1 APE_0130.1 TRUE 0.85 7 0
 2848 2849 APE_0132.1 APE_0134.1 etfB FALSE 0.051 121 -0.729
 2849 2850 APE_0134.1 APE_0135 etfB etfA TRUE 0.999 20 56.645
 2850 2851 APE_0135 APE_0136.1 etfA FALSE 0.081 96 -0.233
 2851 2852 APE_0136.1 APE_0137 ggt FALSE 0.055 124 -0.257
 2852 2853 APE_0137 APE_0140.1 ggt FALSE 0.007 82 -1.804
 2853 2854 APE_0140.1 APE_0141.1 FALSE 0.091 61 -0.937
 2854 2855 APE_0141.1 APE_0142 FALSE 0.072 231 0
 2861 2862 APE_0150.1 APE_0151.1 nth TRUE 0.929 -36 0
 2862 2863 APE_0151.1 APE_0152.1 FALSE 0.325 56 0
 2863 1786883 APE_0152.1 APE_0152a TRUE 0.939 24 1.547
 2865 2866 APE_0153.1 APE_0154 FALSE 0.136 136 0
 2866 2867 APE_0154 APE_0155.1 FALSE 0.221 77 0
 2867 2868 APE_0155.1 APE_0156.1 TRUE 0.94 14 0
 2868 2869 APE_0156.1 APE_0157 FALSE 0.059 73 -0.309
 2869 2870 APE_0157 APE_0158.1 FALSE 0.031 -7 -1.257
 2870 2871 APE_0158.1 APE_0159 FALSE 0.02 100 -1.278
 2873 2874 APE_0162 APE_0163.1 FALSE 0.045 206 0
 2874 2875 APE_0163.1 APE_0166.1 FALSE 0.049 260 0
 2875 1786884 APE_0166.1 APE_tRNA01 FALSE 0.17 109 0
 2877 2878 APE_0168.1 APE_0169.1 agt FALSE 0.067 65 -0.309
 2878 2879 APE_0169.1 APE_0171.1 agt FALSE 0.006 97 -2.404
 2879 2880 APE_0171.1 APE_0173.1 pgk TRUE 0.999 13 17.958
 2882 2883 APE_0177 APE_0178.1 moeA mobB TRUE 0.972 -10 4.442
 2883 2884 APE_0178.1 APE_0179 mobB mobA TRUE 0.988 28 -0.083
 2888 2889 APE_0182.1 APE_0183.1 FALSE 0.18 43 -1.748
 2892 2893 APE_0187 APE_0188.1 TRUE 0.961 8 1.538
 2893 2894 APE_0188.1 APE_0191.1 hjm TRUE 0.869 44 5.529
 2895 1786885 APE_0193.1 APE_0193a lys9 FALSE 0.064 262 0
 2900 2901 APE_0199.1 APE_0200 FALSE 0.095 85 -0.309
 2904 1786886 APE_0203.1 APE_tRNA02 FALSE 0.059 281 0
 1786886 2905 APE_tRNA02 APE_0204.1 kptA FALSE 0.365 53 0
 2906 2907 APE_0207 APE_0208 FALSE 0.216 82 0
 2908 2909 APE_0209.1 APE_0211.1 FALSE 0.233 42 -0.175
 2911 2912 APE_0213.1 APE_0214.1 TRUE 0.752 33 0
 2912 2914 APE_0214.1 APE_0216.1 FALSE 0.126 -3 0
 2914 2915 APE_0216.1 APE_0218 rpl2p FALSE 0.443 99 1.465
 2915 2916 APE_0218 APE_0219 rpl2p TRUE 0.91 13 0
 2916 2917 APE_0219 APE_0220 TRUE 0.895 21 0
 2917 1786887 APE_0220 APE_0220a TRUE 0.9 6 1.322
 1786887 2919 APE_0220a APE_0222.1 FALSE 0.081 104 -0.27
 2921 2922 APE_0226.1 APE_0227 rpl3p FALSE 0.39 282 48.088
 2922 2923 APE_0227 APE_0228.1 rpl3p rpl4p TRUE 0.996 31 102.019
 2923 2924 APE_0228.1 APE_0228a.1 rpl4p rpl23p TRUE 0.91 -3 102.019
 2925 2926 APE_0230.1 APE_0231 FALSE 0.005 115 -1.546
 2926 2927 APE_0231 APE_0233 TRUE 0.813 0 23.02
 2927 2928 APE_0233 APE_0234 TRUE 0.992 37 19.035
 2928 2929 APE_0234 APE_0235.1 thiL FALSE 0.078 64 -0.241
 2929 2930 APE_0235.1 APE_0236.1 thiL cobA FALSE 0.137 161 -2.703
 2930 2931 APE_0236.1 APE_0237.1 cobA TRUE 0.514 35 -0.27
 2931 2932 APE_0237.1 APE_0238 FALSE 0.062 267 0
 2932 2933 APE_0238 APE_0239 FALSE 0.165 113 0
 2933 2934 APE_0239 APE_0240 FALSE 0.134 139 0
 1786888 2936 APE_0240a APE_0242.1 FALSE 0.365 53 0
 2937 2938 APE_0243 APE_0244.1 pdxT FALSE 0.017 474 -0.309
 2938 2939 APE_0244.1 APE_0246.1 pdxT pdxS TRUE 0.817 -3 369.606
 2939 2940 APE_0246.1 APE_0248.1 pdxS FALSE 0.037 99 -2.206
 2941 2942 APE_0249.1 APE_0252 TRUE 0.999 24 64.634
 2942 2943 APE_0252 APE_0254 TRUE 0.734 55 5.011
 2944 2945 APE_0255.1 APE_0256 FALSE 0.21 87 0
 2945 2946 APE_0256 APE_0256a.1 rpoE2 TRUE 0.887 3 37.875
 2946 2947 APE_0256a.1 APE_0257 rpoE2 rpoE1 TRUE 0.999 7 56.295
 2947 2948 APE_0257 APE_0257a rpoE1 FALSE 0.191 69 0
 2948 2949 APE_0257a APE_0258.1 FALSE 0.183 102 0
 2949 2950 APE_0258.1 APE_0260.1 pyrD FALSE 0.044 65 -0.843
 2950 2951 APE_0260.1 APE_0261.1 pyrD pyrC TRUE 0.99 -28 3.893
 2953 2954 APE_0263.1 APE_0264.1 FALSE 0.042 495 0
 1786889 2957 APE_tRNA03 APE_0267 FALSE 0.067 246 0
 2960 2961 APE_0266b APE_0270.1 modB FALSE 0.263 66 0
 2961 2962 APE_0270.1 APE_0272.1 modB modA TRUE 0.902 -6 229.268
 2963 1786892 APE_0273 APE_0273a TRUE 0.959 -22 5.909
 1786892 2964 APE_0273a APE_0274 FALSE 0.483 37 -0.241
 2964 1786893 APE_0274 APE_0274a FALSE 0.069 239 0
 1786893 2965 APE_0274a APE_0275.1 FALSE 0.038 686 0
 2965 1786894 APE_0275.1 APE_0275a FALSE 0.038 707 0
 1786894 2966 APE_0275a APE_0275b.1 FALSE 0.061 270 0
 2966 2967 APE_0275b.1 APE_0276.1 FALSE 0.048 404 0
 2967 1786895 APE_0276.1 APE_0276a TRUE 0.896 -13 16.132
 1786895 2969 APE_0276a APE_0278 FALSE 0.051 354 0
 2969 1786896 APE_0278 APE_0278a TRUE 0.929 -36 0
 1786896 2970 APE_0278a APE_0279.1 FALSE 0.049 381 0
 2970 2971 APE_0279.1 APE_0279a.1 FALSE 0.264 -7 0
 2978 2979 APE_0287 APE_0288 TRUE 0.668 89 9.637
 2980 1786898 APE_0290.1 APE_0290a FALSE 0.149 123 0
 1786898 2981 APE_0290a APE_0291 TRUE 0.954 -58 0
 2981 1786899 APE_0291 APE_0291a FALSE 0.105 167 0
 1786899 2983 APE_0291a APE_0293 FALSE 0.126 -3 0
 2985 1786900 APE_0295 APE_0295a FALSE 0.126 -3 0
 1786900 2987 APE_0295a APE_0297 FALSE 0.485 -13 0
 2987 2989 APE_0297 APE_0299.1 FALSE 0.305 59 0
 2989 2990 APE_0299.1 APE_0300.1 FALSE 0.053 335 0
 2990 2991 APE_0300.1 APE_0301.1 TRUE 0.994 7 0
 2991 2992 APE_0301.1 APE_0302.1 TRUE 0.62 -3 4.25
 2992 2993 APE_0302.1 APE_0303 TRUE 0.999 14 138.171
 2993 2994 APE_0303 APE_0304.1 TRUE 0.998 17 1.437
 2995 2997 APE_0306.1 APE_0308.1 eapA TRUE 0.997 -84 4.374
 2997 2998 APE_0308.1 APE_0309.1 eapA FALSE 0.322 -7 -0.976
 2998 2999 APE_0309.1 APE_0311 mcl FALSE 0.004 123 -2.484
 2999 3000 APE_0311 APE_0313.1 mcl FALSE 0.016 108 -0.947
 3000 3001 APE_0313.1 APE_0314.1 TRUE 0.665 64 1.936
 3002 3003 APE_0316.1 APE_0317.1 FALSE 0.035 236 -0.162
 3003 3004 APE_0317.1 APE_0319 FALSE 0.03 218 -18.598
 3004 3005 APE_0319 APE_0320.1 FALSE 0.027 148 -0.147
 1786901 3010 APE_tRNA05 APE_0326.1 FALSE 0.211 86 0
 3010 3012 APE_0326.1 APE_0329.1 FALSE 0.052 338 0
 3012 3013 APE_0329.1 APE_0330.1 FALSE 0.209 88 0
 3016 3017 APE_0334 APE_0336.1 TRUE 0.85 7 0
 3017 3018 APE_0336.1 APE_0337.1 FALSE 0.005 102 -1.775
 3020 3021 APE_0339.1 APE_0340.1 TRUE 0.786 11 -0.624
 3021 3023 APE_0340.1 APE_0342.1 FALSE 0.042 185 -0.241
 3023 3024 APE_0342.1 APE_0343 rpl15p FALSE 0.005 116 -1.257
 3024 3026 APE_0343 APE_0345.1 rpl15p rpl30p TRUE 0.999 14 92.047
 3026 3027 APE_0345.1 APE_0346 rpl30p rps5p TRUE 0.98 46 96.719
 3027 3028 APE_0346 APE_0347 rps5p rpl18p TRUE 0.995 29 63.675
 3028 3029 APE_0347 APE_0348 rpl18p rpl19e TRUE 0.998 21 74.964
 3029 3030 APE_0348 APE_0349 rpl19e rpl32e TRUE 0.998 21 55.041
 3030 3031 APE_0349 APE_0350 rpl32e rpl6p TRUE 0.812 0 48.971
 3031 3032 APE_0350 APE_0352.1 rpl6p rps8p TRUE 0.941 121 1578.612
 3032 1786902 APE_0352.1 APE_0352a rps8p rps14p TRUE 0.999 17 80.184
 1786902 3034 APE_0352a APE_0354.1 rps14p rpl5p TRUE 0.998 21 72.18
 3034 3035 APE_0354.1 APE_0356.1 rpl5p rps4e TRUE 0.908 -3 90.39
 3035 3036 APE_0356.1 APE_0358 rps4e rpl24p TRUE 0.983 44 85.736
 3036 3037 APE_0358 APE_0359 rpl24p rpl14p TRUE 0.998 20 92.813
 3037 3038 APE_0359 APE_0360.1 rpl14p rps17p TRUE 0.999 13 86.525
 3038 3039 APE_0360.1 APE_0362 rps17p rnp1 TRUE 0.992 -30 12.003
 3039 1786903 APE_0362 APE_0362a rnp1 rpl29p TRUE 0.975 -19 11.822
 1786903 3041 APE_0362a APE_0363 rpl29p rps3p TRUE 0.998 20 365.489
 3041 3042 APE_0363 APE_0365 rps3p rpl22p TRUE 0.991 5 135.962
 3042 3043 APE_0365 APE_0367.1 rpl22p rps19p TRUE 0.996 27 75.116
 3043 3045