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CopraRNA 5344133

Input and runtime details for job 5344133 (precomputed example)

Sequence input

? sRNA sequences[.fa]
? Putative target sequences (organism of interest)[.fa]
? Extract sequences aroundstart codon
? nt up (1-300)200
? nt down (1-300)100

CopraRNA parameters

? Consensus prediction off
? p-value combinationno
? p-value filtering (0=off)0

IntaRNA parameters

? Target folding window size150
? Target max. basepair distance100

Job ID 5344133 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:28:43 CET 2018
?CopraRNA Started@ Fri Feb 16 20:36:11 CET 2018
?CopraRNA Finished & Post-Processing@ Sat Feb 17 02:15:51 CET 2018
?Post-Processing Finished@ Sat Feb 17 02:15:58 CET 2018
?Job Completed@ Sat Feb 17 02:16:29 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de/RetrieveResults.jsp?jobID=5344133&toolName=CopraRNA ( 30 days expiry )

Description of the job

RybB

Output download complete results [zip]

Downloadable files

[csv]
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[csv]
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heatmap

? Conserved, identified interactions for NC_000913 Escherichia coli str. K-12 substr. MG1655

Sort by selecting a column name:
Rank CopraRNA p-value CopraRNA fdr value Locus Tag Gene Name Energy [kcal/mol] IntaRNA p-value Position mRNA Position sRNA Annotation Additional homologs
1 0 0 b3752 rbsK -20.54 0.000534 137 -- 155 1 -- 21 ribokinase  
2 5.107e-11 8.961e-08 b2314 dedD -25.37 0.000001 176 -- 205 1 -- 30 membrane-anchored periplasmic protein involved in septation  
3 3.973e-07 0.0004647 b0081 mraZ -16.47 0.011640 172 -- 200 1 -- 32 RsmH methytransferase inhibitor  
4 1.99e-05 0.01653 b4255 rraB -17.36 0.006479 180 -- 205 1 -- 23 protein inhibitor of RNase E  
5 2.356e-05 0.01653 b1123 potD -19.53 0.001282 190 -- 207 9 -- 25 spermidine/putrescine ABC transporter periplasmic binding protein  
6 9.344e-05 0.05465 b2215 ompC -14.72 0.032428 133 -- 159 1 -- 28 outer membrane porin protein C b0929 b0241 b1377
7 0.0001218 0.05555 b1811 yoaH -21.30 0.000256 259 -- 293 1 -- 35 UPF0181 family protein  
8 0.0001267 0.05555 b2697 alaS -16.66 0.010303 247 -- 274 1 -- 35 alanyl-tRNA synthetase  
9 0.0002541 0.09908 b4000 hupA -15.77 0.017828 82 -- 110 1 -- 35 HU DNA-binding transcriptional regulator alpha subunit  
10 0.0003274 0.1087 b1020 phoH -9.93 0.281763 74 -- 85 48 -- 59 ATP-binding protein; putative PhoH family P-loop ATPase  
11 0.0003708 0.1087 b4201 priB -14.90 0.029310 176 -- 193 6 -- 26 primosomal protein N  
12 0.0004023 0.1087 b3176 glmM -16.74 0.009770 131 -- 153 1 -- 22 phosphoglucosamine mutase  
13 0.0004028 0.1087 b1107 nagZ -16.35 0.012500 184 -- 201 3 -- 21 beta N-acetyl-glucosaminidase  
14 0.0006392 0.1243 b3745 viaA -13.90 0.050132 246 -- 264 10 -- 25 stimulator of RavA ATPase activity; von Willebrand factor domain protein  
15 0.0006403 0.1243 b0178 skp -17.37 0.006465 90 -- 106 1 -- 17 periplasmic chaperone  
16 0.0006527 0.1243 b2563 acpS -16.60 0.010715 145 -- 164 1 -- 23 holo-[acyl-carrier-protein] synthase 1  
17 0.0006839 0.1243 b1247 oppF -10.96 0.191014 264 -- 288 1 -- 22 oligopeptide ABC transporter ATPase  
18 0.0007186 0.1243 b3657 yicJ -19.60 0.001218 184 -- 200 5 -- 21 putative transporter  
19 0.000738 0.1243 b1508 hipB -18.00 0.004180 266 -- 295 1 -- 32 antitoxin of HipAB toxin-antitoxin system b1299 b1434
20 0.0007622 0.1243 b1507 hipA -19.17 0.001718 1 -- 29 1 -- 31 inactivating GltX kinase facilitating persister formation; toxin of HipAB TA pair; autokinase  
21 0.0007937 0.1243 b3055 ygiM -17.78 0.004866 75 -- 99 1 -- 23 SH3 domain protein  
22 0.0008145 0.1243 b3574 yiaJ -21.10 0.000313 196 -- 241 1 -- 32 transcriptional repressor for the yiaKLMNO-lyxK-sgbHUE operon  
23 0.0008148 0.1243 b2573 rpoE -12.22 0.112158 248 -- 284 1 -- 24 RNA polymerase sigma E factor  
24 0.0009771 0.1361 b4295 yjhU -16.20 0.013710 198 -- 226 5 -- 30 putative DNA-binding transcriptional regulator; KpLE2 phage-like element b1512
25 0.0009834 0.1361 b3733 atpG -13.27 0.068654 183 -- 205 1 -- 22 F1 sector of membrane-bound ATP synthase gamma subunit  
26 0.001009 0.1361 b3731 atpC -14.21 0.042680 144 -- 160 2 -- 20 F1 sector of membrane-bound ATP synthase epsilon subunit  
27 0.001238 0.1512 b4045 yjbJ -9.99 0.275707 259 -- 267 19 -- 28 stress-induced protein UPF0337 family  
28 0.001242 0.1512 b0879 macB -8.34 0.466885 135 -- 159 1 -- 22 macrolide ABC transporter peremase/ATPase  
29 0.00125 0.1512 b2499 purM -15.92 0.016248 173 -- 203 3 -- 34 phosphoribosylaminoimidazole synthetase  
30 0.001442 0.1635 b3458 livK -12.84 0.084462 180 -- 215 6 -- 33 leucine transporter subunit  
31 0.001481 0.1635 b3468 yhhN -14.35 0.039524 32 -- 52 1 -- 21 TMEM86 family putative inner membrane protein  
32 0.001499 0.1635 b0661 miaB -12.88 0.082685 213 -- 250 6 -- 36 tRNA-i(6)A37 methylthiotransferase  
33 0.001538 0.1635 b4141 yjeH -13.95 0.048780 254 -- 275 1 -- 22 putative transporter  
34 0.001647 0.1648 b1218 chaC -13.74 0.054411 171 -- 189 1 -- 17 cation transport regulator  
35 0.00168 0.1648 b2231 gyrA -15.33 0.023033 230 -- 249 7 -- 25 DNA gyrase (type II topoisomerase) subunit A  
36 0.001784 0.1648 b0785 moaE -14.28 0.040953 241 -- 264 1 -- 21 molybdopterin synthase large subunit  
37 0.001785 0.1648 b3933 ftsN -15.64 0.019200 24 -- 52 1 -- 29 essential cell division protein  
38 0.001836 0.1648 b3188 sfsB -13.60 0.058336 253 -- 274 1 -- 32 malPQ operon transcriptional activator  
39 0.001912 0.1648 b2532 trmJ -14.54 0.035636 97 -- 121 1 -- 23 tRNA mC32 mU32 2'-O-methyltransferase SAM-dependent  
40 0.001973 0.1648 b1823 cspC -10.89 0.196769 199 -- 231 1 -- 29 stress protein member of the CspA-family  
41 0.002071 0.1648 b0992 yccM -9.88 0.287125 161 -- 167 1 -- 7 putative 4Fe-4S membrane protein  
42 0.002133 0.1648 b0968 yccX -12.44 0.101807 184 -- 198 5 -- 23 weak acylphosphatase  
43 0.00215 0.1648 b4268 idnK -13.73 0.054596 180 -- 268 1 -- 79 D-gluconate kinase thermosensitive b3437
44 0.002166 0.1648 b3349 slyD -19.18 0.001707 20 -- 41 5 -- 23 FKBP-type peptidyl prolyl cis-trans isomerase (rotamase)  
45 0.002187 0.1648 b3391 hofQ -14.99 0.027914 2 -- 20 1 -- 20 DNA catabolic putative fimbrial transporter  
46 0.002205 0.1648 b1662 ribC -17.71 0.005126 34 -- 61 2 -- 29 riboflavin synthase alpha subunit  
47 0.002271 0.1648 b3169 nusA -13.61 0.058009 55 -- 79 4 -- 28 transcription termination/antitermination L factor  
48 0.002302 0.1648 b3460 livJ -15.11 0.026091 183 -- 229 1 -- 30 branched-chain amino acid ABC transporter periplasmic binding protein  
49 0.002324 0.1648 b1119 nagK -12.21 0.112661 180 -- 199 1 -- 21 N-acetyl-D-glucosamine kinase  
50 0.002349 0.1648 b2040 rfbD -20.63 0.000491 127 -- 157 3 -- 32 dTDP-L-rhamnose synthase NAD(P)-dependent dTDP-4-dehydrorhamnose reductase subunit  
51 0.00253 0.1729 b0699 ybfA -18.06 0.004001 182 -- 204 2 -- 32 DUF2517 family protein  
52 0.002562 0.1729 b0881 clpS -16.21 0.013666 11 -- 25 5 -- 25 regulatory protein for ClpA substrate specificity  
53 0.002642 0.1735 b0055 djlA -12.56 0.096184 186 -- 227 1 -- 31 membrane-anchored DnaK co-chaperone DNA-binding protein  
54 0.00267 0.1735 b0131 panD -12.96 0.079905 178 -- 195 5 -- 22 aspartate 1-decarboxylase  
55 0.002823 0.1778 b3319 rplD -12.54 0.096993 18 -- 45 1 -- 32 50S ribosomal subunit protein L4  
56 0.002838 0.1778 b3371 frlB -17.11 0.007704 196 -- 228 2 -- 32 fructoselysine-6-P-deglycase  
57 0.003017 0.1789 b2950 yggR -13.19 0.071427 205 -- 223 1 -- 21 putative PilT family AAA+ ATPase  
58 0.00302 0.1789 b0556 rzpD -16.79 0.009474 64 -- 103 3 -- 36 DLP12 prophage; putative murein endopeptidase  
59 0.003042 0.1789 b4132 cadB -12.03 0.121895 256 -- 272 4 -- 32 putative lysine/cadaverine transporter  
60 0.003101 0.1789 b1849 purT -10.92 0.194410 188 -- 196 17 -- 25 phosphoribosylglycinamide formyltransferase 2  
61 0.00311 0.1789 b0224 yafK -14.83 0.030578 183 -- 204 1 -- 20 L D-transpeptidase-related protein  
62 0.003256 0.1843 b1243 oppA -14.22 0.042360 208 -- 232 1 -- 21 oligopeptide ABC transporter periplasmic binding protein  
63 0.003337 0.1851 b1453 ansP -14.01 0.047364 263 -- 293 1 -- 34 L-asparagine transporter  
64 0.003422 0.1851 b4238 nrdD -18.31 0.003326 69 -- 106 1 -- 34 anaerobic ribonucleoside-triphosphate reductase  
65 0.00343 0.1851 b4363 yjjB -10.89 0.196296 181 -- 193 20 -- 32 DUF3815 family inner membrane protein  
66 0.003537 0.1858 b0411 tsx -15.28 0.023631 170 -- 194 1 -- 34 nucleoside channel receptor of phage T6 and colicin K  
67 0.003548 0.1858 b4412 hokC -18.22 0.003564 16 -- 36 7 -- 32 toxic membrane protein small b1562 b0018
68 0.003723 0.191 b3131 agaR -11.10 0.180958 280 -- 299 5 -- 22 transcriptional repressor of the aga regulon  
69 0.003755 0.191 b0889 lrp -14.02 0.046951 165 -- 212 1 -- 32 leucine-responsive global transcriptional regulator  
70 0.003861 0.1936 b3559 glyS -15.28 0.023738 120 -- 130 1 -- 11 glycine tRNA synthetase beta subunit  
71 0.003993 0.1953 b2347 yfdC -11.68 0.141997 251 -- 269 1 -- 17 putative inner membrane protein  
72 0.004007 0.1953 b2175 mepS -13.55 0.059767 177 -- 194 6 -- 23 murein DD-endopeptidase space-maker hydrolase mutational suppressor of prc thermosensitivity outer membrane lipoprotein weak murein LD-carboxypeptidase  
73 0.004089 0.1966 b3857 mobA -16.43 0.011914 256 -- 282 7 -- 29 molybdopterin-guanine dinucleotide synthase  
74 0.004177 0.1979 b2155 cirA -15.75 0.017995 130 -- 157 1 -- 33 colicin IA outer membrane receptor and translocator; ferric iron-catecholate transporter  
75 0.00423 0.1979 b1917 yecC -10.99 0.188691 288 -- 298 1 -- 11 putative ABC transporter ATPase  
76 0.004413 0.2038 b3211 yhcC -9.63 0.312909 148 -- 162 49 -- 62 putative Fe-S oxidoreductase Radical SAM superfamily protein  
77 0.004622 0.2062 b1241 adhE -12.78 0.086641 182 -- 205 1 -- 21 fused acetaldehyde-CoA dehydrogenase/iron-dependent alcohol dehydrogenase/pyruvate-formate lyase deactivase  
78 0.004634 0.2062 b1601 tqsA -18.27 0.003423 191 -- 205 1 -- 25 pheromone AI-2 transporter  
79 0.004643 0.2062 b2264 menD -12.62 0.093644 52 -- 86 1 -- 30 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate synthase; SEPHCHC synthase  
80 0.004856 0.213 b1478 adhP -8.37 0.463200 263 -- 276 48 -- 59 ethanol-active dehydrogenase/acetaldehyde-active reductase  
81 0.004938 0.2139 b0115 aceF -13.95 0.048783 266 -- 289 7 -- 31 pyruvate dehydrogenase dihydrolipoyltransacetylase component E2  
82 0.005087 0.2147 b2741 rpoS -15.46 0.021295 2 -- 28 1 -- 25 RNA polymerase sigma S (sigma 38) factor  
83 0.005101 0.2147 b2610 ffh -14.32 0.040245 57 -- 74 4 -- 21 Signal Recognition Particle (SRP) component with 4.5S RNA (ffs)  
84 0.005241 0.2147 b2513 yfgM -12.13 0.116945 176 -- 204 2 -- 26 ancillary SecYEG translocon subunit; putative anti-RcsB factor  
85 0.0054 0.2147 b4461 yfjD -16.56 0.010978 60 -- 89 2 -- 27 UPF0053 family inner membrane protein  
86 0.005461 0.2147 b0002 thrA -11.41 0.159352 219 -- 235 1 -- 25 Bifunctional aspartokinase/homoserine dehydrogenase 1  
87 0.005508 0.2147 b0083 ftsL -13.20 0.070894 129 -- 146 1 -- 23 membrane bound cell division leucine zipper septum protein  
88 0.005527 0.2147 b3525 yhjH -13.65 0.056862 190 -- 212 5 -- 23 cyclic-di-GMP phosphodiesterase FlhDC-regulated  
89 0.005593 0.2147 b3398 yrfF -14.72 0.032340 186 -- 206 1 -- 31 putative RcsCDB-response attenuator inner membrane protein  
90 0.005632 0.2147 b1234 rssA -9.83 0.291555 191 -- 222 1 -- 26 putative patatin-like family phospholipase  
91 0.005641 0.2147 b3956 ppc -14.82 0.030673 242 -- 282 2 -- 37 phosphoenolpyruvate carboxylase  
92 0.005693 0.2147 b2099 yegU -12.49 0.099484 183 -- 197 7 -- 22 ADP-ribosylglycohydrolase family protein  
93 0.00579 0.2147 b1256 ompW -13.14 0.073154 206 -- 220 1 -- 16 outer membrane protein W  
94 0.005808 0.2147 b0652 gltL -13.33 0.066498 266 -- 292 1 -- 31 glutamate/aspartate ABC transporter ATPase  
95 0.005813 0.2147 b3450 ugpC -12.76 0.087557 84 -- 111 1 -- 34 sn-glycerol-3-phosphate ABC transporter ATPase  
96 0.005909 0.216 b0511 ybbW -13.57 0.059054 201 -- 236 1 -- 27 putative allantoin transporter  
97 0.005972 0.2161 b0768 ybhD -15.34 0.022873 51 -- 78 6 -- 32 putative DNA-binding transcriptional regulator b2409
98 0.006107 0.2179 b3822 recQ -9.35 0.343777 185 -- 205 1 -- 22 ATP-dependent DNA helicase  
99 0.006147 0.2179 b4477 dgoA -14.15 0.044006 176 -- 210 1 -- 31 2-oxo-3-deoxygalactonate 6-phosphate aldolase  
100 0.006296 0.2188 b1321 ycjX -13.69 0.055797 38 -- 45 18 -- 25 DUF463 family protein puatative P-loop NTPase  
101 0.006298 0.2188 b3549 tag -14.94 0.028658 147 -- 165 3 -- 21 3-methyl-adenine DNA glycosylase I constitutive  
102 0.006464 0.2224 b3785 wzzE -10.51 0.228012 146 -- 168 1 -- 22 Entobacterial Common Antigen (ECA) polysaccharide chain length modulation protein  
103 0.006657 0.2268 b3617 kbl -13.19 0.071337 258 -- 276 7 -- 25 glycine C-acetyltransferase  
104 0.006761 0.2281 b1671 ydhX -13.25 0.069212 145 -- 167 2 -- 25 putative 4Fe-4S ferridoxin-type protein; FNR Nar NarP-regulated protein; putative subunit of YdhYVWXUT oxidoreductase complex b4072
105 0.007004 0.2333 b4034 malE -12.62 0.093531 92 -- 123 2 -- 32 maltose transporter subunit  
106 0.007048 0.2333 b4512 ybdD -9.12 0.369799 33 -- 54 1 -- 25 DUF466 family protein b4353
107 0.007146 0.2343 b0085 murE -14.50 0.036427 193 -- 205 1 -- 25 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate:meso- diaminopimelate ligase  
108 0.007234 0.2348 b1725 yniA -14.77 0.031588 182 -- 211 1 -- 32 fructosamine kinase family protein  
109 0.007372 0.2348 b3701 dnaN -13.44 0.063163 149 -- 162 9 -- 22 DNA polymerase III beta subunit  
110 0.007401 0.2348 b0784 moaD -14.78 0.031320 178 -- 203 3 -- 25 molybdopterin synthase small subunit  
111 0.007434 0.2348 b0103 coaE -19.66 0.001155 224 -- 242 1 -- 25 dephospho-CoA kinase  
112 0.007494 0.2348 b2529 iscU -11.51 0.152972 152 -- 183 2 -- 33 iron-sulfur cluster assembly scaffold protein  
113 0.00768 0.2368 b1923 fliC -14.29 0.040892 38 -- 54 4 -- 25 flagellar filament structural protein (flagellin)  
114 0.007692 0.2368 b0584 fepA -13.71 0.055244 241 -- 265 1 -- 26 ferrienterobactin outer membrane transporter  
115 0.007886 0.2401 b2890 lysS -11.64 0.144658 161 -- 186 1 -- 20 lysine tRNA synthetase constitutive b4129
116 0.007938 0.2401 b0008 talB -12.38 0.104625 254 -- 276 7 -- 26 transaldolase B  
117 0.008014 0.2404 b3052 hldE -12.77 0.087254 132 -- 161 1 -- 30 heptose 7-phosphate kinase and heptose 1-phosphate adenyltransferase  
118 0.008241 0.2451 b3394 hofN -17.25 0.007000 1 -- 22 2 -- 26 DNA catabolic putative fimbrial assembly protein  
119 0.008338 0.2459 b0123 cueO -14.31 0.040489 47 -- 61 9 -- 24 multicopper oxidase (laccase)  
120 0.00842 0.2462 b1068 yceM -12.88 0.082928 190 -- 205 9 -- 24 putative oxidoreductase  
121 0.008566 0.2484 b3466 yhhL -13.33 0.066537 119 -- 150 1 -- 32 DUF1145 family protein  
122 0.008886 0.2491 b4366 bglJ -14.76 0.031763 19 -- 32 15 -- 29 bgl operon transcriptional activator  
123 0.008923 0.2491 b3243 aaeR -15.21 0.024673 72 -- 99 1 -- 34 transcriptional regulator for aaeXAB operon  
124 0.008958 0.2491 b0124 gcd -13.85 0.051383 179 -- 193 48 -- 62 glucose dehydrogenase  
125 0.009022 0.2491 b0658 ybeX -16.01 0.015431 14 -- 34 5 -- 21 putative ion transport  
126 0.009112 0.2491 b0299 insF1 -12.99 0.078544 136 -- 158 1 -- 32 IS3 transposase B b0372 b0541 b1026 b2089 b3558
127 0.009277 0.2491 b2781 mazG -12.70 0.090074 53 -- 69 8 -- 24 nucleoside triphosphate pyrophosphohydrolase  
128 0.00928 0.2491 b0491 fetB -12.70 0.090276 178 -- 195 1 -- 17 iron export ABC transporter permease; peroxide resistance protein  
129 0.009293 0.2491 b0428 cyoE -12.51 0.098557 18 -- 26 1 -- 9 protoheme IX farnesyltransferase  
130 0.009344 0.2491 b2840 ygeA -9.74 0.301486 266 -- 295 2 -- 29 Asp/Glu_racemase family protein  
131 0.009354 0.2491 b4478 dgoD -14.24 0.041949 180 -- 199 1 -- 22 D-galactonate dehydratase  
132 0.00937 0.2491 b1120 cobB -12.17 0.114836 175 -- 191 3 -- 18 deacetylase of acs and cheY chemotaxis regulator  
133 0.009634 0.2504 b2551 glyA -13.83 0.051752 272 -- 286 6 -- 21 serine hydroxymethyltransferase  
134 0.009704 0.2504 b1444 patD -10.55 0.224369 279 -- 297 10 -- 25 gamma-aminobutyraldehyde dehydrogenase  
135 0.009724 0.2504 b1387 paaZ -12.57 0.095542 174 -- 198 5 -- 30 oxepin-CoA hydrolase and 3-oxo-5 6-dehydrosuberyl-CoA semialdehyde dehydrogenase  
136 0.00981 0.2504 b4063 soxR -14.24 0.041834 39 -- 60 1 -- 21 redox-sensitive transcriptional activator of soxS; autorepressor  
137 0.0102 0.2504 b0957 ompA -10.25 0.250752 198 -- 232 1 -- 30 outer membrane protein A (3a;II*;G;d)  
138 0.0102 0.2504 b0830 gsiB -12.88 0.082739 282 -- 298 1 -- 16 glutathione ABC transporter periplasmic binding protein  
139 0.01022 0.2504 b3163 nlpI -13.31 0.067339 19 -- 42 4 -- 21 lipoprotein involved in osmotic sensitivity and filamentation  
140 0.01029 0.2504 b3247 rng -10.20 0.255190 49 -- 63 1 -- 14 ribonuclease G  
141 0.01037 0.2504 b2161 nupX -15.31 0.023296 54 -- 80 1 -- 26 nucleoside permease b2164
142 0.01047 0.2504 b3998 nfi -11.68 0.142276 34 -- 51 5 -- 21 endonuclease V; deoxyinosine 3' endonuclease  
143 0.01049 0.2504 b1004 wrbA -9.61 0.314473 272 -- 293 1 -- 25 NAD(P)H:quinone oxidoreductase  
144 0.01052 0.2504 b1066 rimJ -12.60 0.094480 174 -- 195 1 -- 22 ribosomal-protein-S5-alanine N-acetyltransferase  
145 0.01066 0.2504 b2153 folE -11.37 0.162147 44 -- 68 1 -- 21 GTP cyclohydrolase I  
146 0.01079 0.2504 b2453 eutG -16.22 0.013596 18 -- 37 1 -- 22 ethanol dehydrogenase involved in ethanolamine utilization; aldehyde reductase  
147 0.01091 0.2504 b2720 hycF -14.84 0.030299 116 -- 133 1 -- 16 formate hydrogenlyase complex iron-sulfur protein  
148 0.01095 0.2504 b0082 rsmH -17.59 0.005541 130 -- 156 1 -- 25 16S rRNA m(4)C1402 methyltransferase SAM-dependent  
149 0.01096 0.2504 b3230 rpsI -12.23 0.111717 165 -- 205 1 -- 34 30S ribosomal subunit protein S9  
150 0.01097 0.2504 b1878 flhE -16.24 0.013409 257 -- 279 3 -- 25 proton seal during flagellar secretion  
151 0.01116 0.2504 b0903 pflB -10.70 0.211701 140 -- 166 4 -- 34 formate C-acetyltransferase 1 anaerobic; pyruvate formate-lyase 1  
152 0.01123 0.2504 b1872 torZ -17.40 0.006326 76 -- 107 1 -- 34 trimethylamine N-oxide reductase system III catalytic subunit b0997 b3551
153 0.01124 0.2504 b0414 ribD -14.78 0.031370 153 -- 170 1 -- 22 fused diaminohydroxyphosphoribosylaminopyrimidine deaminase and 5-amino-6-(5-phosphoribosylamino) uracil reductase  
154 0.01125 0.2504 b3412 bioH -12.84 0.084220 262 -- 288 1 -- 28 pimeloyl-ACP methyl ester carboxylesterase  
155 0.01136 0.2504 b2168 fruK -7.75 0.545043 91 -- 105 7 -- 22 fructose-1-phosphate kinase  
156 0.01139 0.2504 b0197 metQ -9.46 0.330846 169 -- 205 1 -- 33 DL-methionine transporter subunit  
157 0.0114 0.2504 b3833 ubiE -14.57 0.035245 198 -- 236 1 -- 30 bifunctional 2-octaprenyl-6-methoxy-1 4-benzoquinone methylase/ S-adenosylmethionine:2-DMK methyltransferase  
158 0.01161 0.2504 b3907 rhaT -15.90 0.016445 218 -- 234 1 -- 28 L-rhamnose:proton symporter  
159 0.01174 0.2504 b3886 yihY -12.46 0.100688 17 -- 39 6 -- 26 BrkB family putative transporter inner membrane protein  
160 0.0118 0.2504 b0078 ilvH -13.58 0.059018 151 -- 175 1 -- 25 acetolactate synthase 3 small subunit valine-sensitive  
161 0.01187 0.2504 b0093 ftsQ -14.15 0.043981 32 -- 43 18 -- 29 divisome assembly protein membrane anchored protein involved in growth of wall at septum  
162 0.012 0.2504 b2079 baeR -15.58 0.019969 182 -- 201 6 -- 24 response regulator in two-component regulatory system with BaeS  
163 0.01202 0.2504 b1482 osmC -10.53 0.225653 203 -- 226 1 -- 22 lipoyl-dependent Cys-based peroxidase hydroperoxide resistance; salt-shock inducible membrane protein; peroxiredoxin  
164 0.01206 0.2504 b0882 clpA -9.12 0.369525 95 -- 107 48 -- 60 ATPase and specificity subunit of ClpA-ClpP ATP-dependent serine protease chaperone activity  
165 0.01211 0.2504 b3642 pyrE -11.74 0.138291 22 -- 41 7 -- 25 orotate phosphoribosyltransferase  
166 0.01216 0.2504 b4485 ytfR -12.60 0.094393 18 -- 41 9 -- 34 putative sugar ABC transporter ATPase  
167 0.01216 0.2504 b1013 rutR -12.90 0.082087 181 -- 218 3 -- 35 rut operon transcriptional repressor for b0796
168 0.01219 0.2504 b1830 prc -10.01 0.273454 1 -- 12 6 -- 17 carboxy-terminal protease for penicillin-binding protein 3  
169 0.01228 0.2504 b3386 rpe -13.36 0.065831 171 -- 203 3 -- 33 D-ribulose-5-phosphate 3-epimerase  
170 0.01232 0.2504 b2580 ung -11.45 0.156876 183 -- 205 1 -- 22 uracil-DNA-glycosylase  
171 0.01235 0.2504 b1092 fabD -9.75 0.300248 258 -- 270 47 -- 59 malonyl-CoA-[acyl-carrier-protein] transacylase  
172 0.01269 0.2504 b0571 cusR -10.48 0.230388 14 -- 48 1 -- 33 response regulator in two-component regulatory system with CusS b1969
173 0.01269 0.2504 b4172 hfq -12.44 0.101529 181 -- 205 1 -- 21 global sRNA chaperone; HF-I host factor for RNA phage Q beta replication  
174 0.0127 0.2504 b1960 vsr -15.05 0.027057 161 -- 177 1 -- 19 DNA mismatch endonuclease of very short patch repair  
175 0.01275 0.2504 b3057 bacA -10.43 0.234919 238 -- 261 5 -- 26 undecaprenyl pyrophosphate phosphatase  
176 0.01279 0.2504 b3980 tufB -13.59 0.058494 200 -- 216 7 -- 22 translation elongation factor EF-Tu 2 b3339
177 0.01288 0.2504 b3455 livG -10.61 0.218983 178 -- 198 5 -- 24 branched-chain amino acid ABC transporter ATPase  
178 0.01293 0.2504 b4258 valS -13.78 0.053235 248 -- 266 1 -- 21 valyl-tRNA synthetase  
179 0.01303 0.2504 b1276 acnA -14.81 0.030801 184 -- 199 7 -- 22 aconitate hydratase 1; aconitase A  
180 0.01303 0.2504 b3487 yhiI -13.61 0.058128 230 -- 256 1 -- 27 putative membrane fusion protein (MFP) of efflux pump  
181 0.01309 0.2504 b2799 fucO -15.36 0.022654 183 -- 205 1 -- 21 L-1 2-propanediol oxidoreductase  
182 0.01317 0.2504 b2101 yegW -15.40 0.022099 126 -- 162 3 -- 28 putative DNA-binding transcriptional regulator  
183 0.01318 0.2504 b4483 tatD -12.95 0.080004 100 -- 117 8 -- 25 quality control of Tat-exported FeS proteins; Mg-dependent cytoplasmic DNase  
184 0.0132 0.2504 b2897 sdhE -10.91 0.194803 203 -- 220 7 -- 23 flavinator of succinate dehydrogenase; antitoxin of CptAB toxin-antitoxin pair  
185 0.0132 0.2504 b2009 sbmC -15.75 0.018057 263 -- 294 1 -- 27 DNA gyrase inhibitor  
186 0.01333 0.2514 b0084 ftsI -11.80 0.135121 196 -- 214 1 -- 22 transpeptidase involved in septal peptidoglycan synthesis; penicillin-binding protein 3  
187 0.01374 0.2529 b1344 ttcA -15.51 0.020761 46 -- 73 1 -- 29 tRNA s(2)C32 thioltransferase iron sulfur cluster protein  
188 0.01388 0.2529 b4198 ulaF -10.93 0.193396 24 -- 37 2 -- 17 L-ribulose 5-phosphate 4-epimerase  
189 0.01393 0.2529 b0934 ssuC -14.25 0.041816 137 -- 153 1 -- 17 aliphatic sulfonate ABC transporter permease  
190 0.01401 0.2529 b2478 dapA -10.08 0.266807 73 -- 98 6 -- 25 dihydrodipicolinate synthase  
191 0.01405 0.2529 b3532 bcsB -12.45 0.101006 205 -- 235 1 -- 16 regulator of cellulose synthase cyclic di-GMP binding  
192 0.01406 0.2529 b4220 tamA -13.04 0.076745 183 -- 206 1 -- 23 translocation and assembly module for autotransporter export outer membrane subunit  
193 0.01407 0.2529 b3582 sgbU -12.18 0.114391 219 -- 241 1 -- 24 putative L-xylulose 5-phosphate 3-epimerase  
194 0.01408 0.2529 b0952 pqiC -11.52 0.151794 181 -- 195 48 -- 61 DUF330 family putative lipoprotein  
195 0.01413 0.2529 b2527 hscB -14.38 0.038945 62 -- 81 1 -- 21 HscA co-chaperone J domain-containing protein Hsc56; IscU-specific chaperone HscAB  
196 0.01416 0.2529 b0870 ltaE -12.27 0.109556 23 -- 39 7 -- 23 L-allo-threonine aldolase PLP-dependent  
197 0.0142 0.2529 b2295 yfbV -14.79 0.031139 250 -- 276 1 -- 25 UPF0208 family inner membrane protein  
198 0.01428 0.2531 b4393 trpR -20.45 0.000581 86 -- 104 16 -- 34 transcriptional repressor tryptophan-binding  
199 0.01447 0.2552 b2790 yqcA -9.70 0.305430 160 -- 205 1 -- 31 short-chain flavodoxin FMN-binding  
200 0.01506 0.259 b0404 acpH -14.03 0.046767 57 -- 80 6 -- 28 acyl carrier protein (ACP) phosphodiesterase; ACP hydrolyase  

Details of Selected Interaction Download Interaction Details 

mRNA

sRNA


		

		

		

		
		

			

				
				

					
					
				

				
				

					
					
				

				
				

					
					
				

				
				

					
					
				

				
			

			

				
				

					
					
				

				
				

					
					
				

				
				

					
					
				

				
				

					
					
				

				
			

		
 
		
		

		
		

		
		
		
		
Evolutionary conservation of mRNA targets
			(alignment generated with
			Jalview)

		
		
		
Evolutionary conservation of sRNA
			(alignment generated with
			Jalview)

		
		
		

		
	

	
	
	

	
	
	




			 
	





	
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Results are computed with CopraRNA version 2.1.2



		 
	

			





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