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CopraRNA 3202356

Input and runtime details for job 3202356 (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 3202356 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:24:02 CET 2018
?CopraRNA Started@ Fri Feb 16 15:24:35 CET 2018
?CopraRNA Finished & Post-Processing@ Sat Feb 17 02:03:47 CET 2018
?Post-Processing Finished@ Sat Feb 17 02:03:55 CET 2018
?Job Completed@ Sat Feb 17 02:04:28 CET 2018
 DIRECT ACCESS: https://rna.informatik.uni-freiburg.de/RetrieveResults.jsp?jobID=3202356&toolName=CopraRNA ( 30 days expiry )

Description of the job

GcvB

Output download complete results [zip]

Downloadable files

[csv]
[txt]
[csv]
[png] [pdf] [ps]
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[html] [pdf]
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[txt] [svg]


heatmap

? Conserved, identified interactions for NC_003197 NC_003277 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

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
138 0.007086 0.182 stm0624 citC -16.00 0.081371 136 -- 192 38 -- 93 [citrate (pro-3S)-lyase] ligase stm0058
134 0.006725 0.1774 stm0546 fimD -17.45 0.046766 176 -- 200 37 -- 60 outer membrane usher protein stm0301 stm0175 stm4593 stm3638 stm0023
190 0.01053 0.1967 stm4032 N/A -12.98 0.242168 37 -- 92 31 -- 85 lipase stm0490
75 0.003517 0.1596 stm1214 ycfR -14.36 0.148951 168 -- 212 35 -- 81 multiple stress resistance protein BhsA stm0823
95 0.004301 0.1596 stm4114 pflD -11.77 0.360092 46 -- 100 34 -- 88 formate C-acetyltransferase stm0843
46 0.001637 0.1267 stm2313 elaC -17.21 0.051329 250 -- 300 51 -- 90 ribonuclease Z stm1109
135 0.006796 0.1774 stm1044 sodC -14.39 0.147293 208 -- 244 43 -- 78 Gifsy-2 prophage superoxide dismutase precursor (Cu-Zn) stm1440 stm0924
58 0.002307 0.14 stm2234 N/A -13.92 0.174542 131 -- 196 38 -- 89 phage tail protein stm2705 stm2233
74 0.003449 0.1596 stm1129 N/A -19.64 0.020096 190 -- 238 139 -- 186 N-acetylmannosamine-6-phosphate 2-epimerase stm3337
41 0.001426 0.1215 stm3718 rfaI -15.09 0.114319 193 -- 209 157 -- 173 lipopolysaccharide 1 3-galactosyltransferase stm3717
34 0.001111 0.1164 stm2746 N/A -14.94 0.120804 53 -- 101 36 -- 90 putative excinuclease ATPase subunit stm4494 stm3753
1 0 0 stm2982 gcvA -98.53 0.000000 1 -- 73 1 -- 73 transcriptional regulator GcvA  
2 2.663e-05 0.04123 stm2355 argT -17.69 0.042680 144 -- 202 34 -- 91 histidine ABC transporter substrate-binding protein HisJ  
3 3.698e-05 0.04123 stm4398 cycA -21.36 0.010235 127 -- 178 38 -- 82 D-serine/D-alanine/glycine transporter  
4 5.758e-05 0.04123 stm3564 livK -17.90 0.039430 157 -- 215 37 -- 90 leucine ABC transporter subunit substrate-binding protein LivK  
5 6.363e-05 0.04123 stm0399 brnQ -24.27 0.003272 169 -- 224 36 -- 81 branched-chain amino acid transport system II carrier protein  
6 7.515e-05 0.04123 stm0665 gltI -17.87 0.039793 157 -- 199 35 -- 81 glutamate/aspartate transporter  
7 8.283e-05 0.04123 stm1953 yedO -23.64 0.004188 172 -- 228 31 -- 88 D-cysteine desulfhydrase  
8 9.263e-05 0.04123 stm0369 prpC -29.42 0.000431 202 -- 269 31 -- 91 2-methylcitrate synthase  
9 0.0001316 0.05206 stm1221 cobB -19.79 0.018892 28 -- 73 51 -- 101 NAD-dependent protein deacylase  
10 0.0001468 0.05229 stm0680 asnB -17.15 0.052408 158 -- 224 32 -- 90 asparagine synthetase B  
11 0.0001804 0.05681 stm0959 lrp -12.80 0.257711 163 -- 181 139 -- 159 leucine-responsive transcriptional regulator  
12 0.0002098 0.05681 stm3344 rpsI -21.57 0.009451 131 -- 172 57 -- 102 30S ribosomal protein S9  
13 0.0002148 0.05681 stm4275 acs -17.09 0.053801 176 -- 229 31 -- 87 acetate--CoA ligase  
14 0.0002233 0.05681 stm3843 trmE -16.53 0.066478 207 -- 249 37 -- 85 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE  
15 0.000269 0.06194 stm3630 dppA -21.81 0.008578 158 -- 199 51 -- 92 ABC transporter substrate-binding protein  
16 0.0002876 0.06194 stm1378 pykF -16.63 0.064116 5 -- 66 31 -- 91 pyruvate kinase  
17 0.0003055 0.06194 stm2694 N/A -22.95 0.005498 261 -- 295 52 -- 90 Fels-2 prophage protein  
18 0.0003131 0.06194 stm0112 leuB -16.29 0.072835 153 -- 217 44 -- 93 3-isopropylmalate dehydrogenase  
19 0.0004167 0.0781 stm0475 acrB -19.12 0.024591 69 -- 114 139 -- 185 aminoglycoside/multidrug transporter permease  
20 0.0004512 0.08034 stm2384 aroC -21.00 0.011794 171 -- 223 39 -- 90 chorismate synthase  
21 0.000482 0.08173 stm1057 pepN -18.92 0.026522 201 -- 244 36 -- 81 aminopeptidase N  
22 0.0005859 0.08814 stm1976 fliM -14.91 0.122150 23 -- 60 38 -- 69 flagellar motor switch protein FliM  
23 0.0005914 0.08814 stm3466 crp -13.97 0.171291 272 -- 288 36 -- 50 transcriptional regulator Crp  
24 0.000609 0.08814 stm3510 yhgH -18.34 0.033208 106 -- 153 42 -- 84 DNA utilization protein GntX  
25 0.0006298 0.08814 stm3161 metC -13.21 0.223681 190 -- 249 35 -- 90 cystathionine beta-lyase  
26 0.0006768 0.08814 stm1365 ydiJ -17.55 0.045121 78 -- 116 57 -- 91 similar to E. coli putative oxidase (AAC74757.1); Blastp hit to AAC74757.1 (1018 aa) 88% identity in aa 1 - 1017  
27 0.0006872 0.08814 stm1806 nhaB -13.59 0.196266 64 -- 136 66 -- 135 Na+/H+ antiporter NhaB  
28 0.0007333 0.08814 stm0376 sbmA -15.26 0.107034 68 -- 102 55 -- 90 peptide transporter  
29 0.0007392 0.08814 stm3096 yqgE -16.45 0.068552 198 -- 251 37 -- 84 DUF179 domain-containing protein  
30 0.0007612 0.08814 stm3909 ilvC -21.15 0.011132 166 -- 188 66 -- 89 ketol-acid reductoisomerase  
31 0.0007673 0.08814 stm0403 yajB -17.88 0.039643 23 -- 70 41 -- 90 ACP phosphodiesterase  
32 0.001017 0.1132 stm1874 N/A -30.35 0.000300 5 -- 53 36 -- 83 putative inner membrane protein  
33 0.001058 0.1142 stm0380 ddlA -21.71 0.008945 31 -- 67 39 -- 76 D-alanine--D-alanine ligase A  
35 0.001151 0.1171 stm1336 rplT -16.07 0.079235 51 -- 96 49 -- 98 50S ribosomal protein L20  
36 0.00125 0.1215 stm3523 glpR -16.55 0.065942 207 -- 266 37 -- 89 DeoR/GlpR family transcriptional regulator  
37 0.001263 0.1215 stm2511 guaB -22.14 0.007548 255 -- 298 35 -- 73 IMP dehydrogenase  
38 0.001379 0.1215 stm0150 aroP -12.21 0.313123 213 -- 232 63 -- 83 APC family aromatic amino acid transporter  
39 0.001399 0.1215 stm4007 glnA -20.44 0.014679 143 -- 217 36 -- 106 type I glutamate--ammonia ligase  
40 0.001409 0.1215 stm4578 serB -16.00 0.081343 27 -- 78 37 -- 87 phosphoserine phosphatase SerB  
42 0.001433 0.1215 stm1318 katE -13.62 0.194137 191 -- 230 43 -- 82 catalase HPII  
43 0.001574 0.1267 stm4453 treC -17.28 0.050040 221 -- 269 37 -- 81 trehalose- 6-P hydrolase  
44 0.001631 0.1267 stm1318 katE -13.62 0.194137 191 -- 230 43 -- 82 catalase HPII  
45 0.001635 0.1267 stm2351 hisP -13.82 0.180688 258 -- 282 115 -- 140 histidine and lysine/arginine/ornithine transport protein  
47 0.001676 0.127 stm0637 dacA -17.91 0.039191 14 -- 64 37 -- 92 serine-type D-Ala-D-Ala carboxypeptidase  
48 0.001762 0.1291 stm4523 yjiW -20.55 0.014078 157 -- 299 40 -- 186 endoribonuclease SymE  
49 0.001802 0.1291 stm1787 N/A -18.29 0.033902 137 -- 202 34 -- 90 [Ni/Fe] hydrogenase large subunit  
50 0.001812 0.1291 stm3207 ygiH -15.41 0.101358 70 -- 101 63 -- 93 acyl-phosphate--glycerol-3-phosphate O-acyltransferase  
51 0.001912 0.1324 stm2692 N/A -10.31 0.546971 162 -- 173 130 -- 141 putative HlyD family secretion protein  
52 0.001934 0.1324 stm0653 ybeL -17.18 0.051878 262 -- 299 155 -- 188 similar to E. coli putative alpha helical protein (AAC73744.1); Blastp hit to AAC73744.1 (160 aa) 91% identity in aa 1 - 160  
53 0.002045 0.1363 stm1876 holE -16.46 0.068295 21 -- 75 31 -- 90 DNA polymerase III subunit theta  
54 0.002071 0.1363 stm1429 ydhB -17.23 0.050879 3 -- 45 36 -- 79 putative LysR family transcriptional regulator  
55 0.002114 0.1363 stm0887 artJ -12.89 0.249853 160 -- 177 72 -- 90 arginine ABC transporter substrate-binding protein  
56 0.002144 0.1363 pslt006 repA -15.36 0.103288 219 -- 279 36 -- 87 DNA replication  
57 0.002298 0.14 stm3921 wecC -19.39 0.022107 89 -- 132 46 -- 91 UDP-N-acetyl-D-mannosamine dehydrogenase  
59 0.00232 0.14 stm4105 metF -16.51 0.066936 223 -- 245 40 -- 59 methylenetetrahydrofolate reductase [NAD(P)H]  
60 0.002585 0.1534 stm0758 ybgR -11.90 0.345594 235 -- 293 32 -- 91 cation transporter  
61 0.002902 0.1596 stm3567 livJ -18.03 0.037474 150 -- 196 40 -- 87 high-affinity branched-chain amino acid transporter  
62 0.003015 0.1596 stm1299 gdhA -15.31 0.105026 136 -- 171 63 -- 91 glutamate dehydrogenase  
63 0.003024 0.1596 stm3563 livH -16.49 0.067433 27 -- 175 36 -- 184 branched-chain amino acid ABC transporter permease LivH  
64 0.003108 0.1596 stm4162 thiF -13.53 0.200092 247 -- 294 34 -- 76 molybdopterin/thiamine biosynthesis adenylyltransferase  
65 0.003171 0.1596 stm0830 glnH -11.06 0.446113 180 -- 193 153 -- 165 glutamine ABC transporter substrate-binding protein GlnH  
66 0.003179 0.1596 stm0264 dnaQ -14.69 0.132400 209 -- 271 35 -- 91 DNA polymerase III epsilon subunit  
67 0.003193 0.1596 stm0122 ftsI -11.87 0.349270 199 -- 241 52 -- 90 peptidoglycan glycosyltransferase FtsI  
68 0.003225 0.1596 stm3930 yifK -15.10 0.113746 177 -- 247 44 -- 93 amino acid permease  
69 0.003278 0.1596 stm3675 sgbH -16.55 0.065932 154 -- 200 33 -- 93 3-keto-L-gulonate-6-phosphate decarboxylase  
70 0.003306 0.1596 stm2688 smpB -12.25 0.308628 191 -- 230 36 -- 77 SsrA-binding protein  
71 0.003339 0.1596 stm0105 yabI -14.10 0.163814 151 -- 168 141 -- 162 similar to E. coli orf hypothetical protein (AAC73176.1); Blastp hit to AAC73176.1 (254 aa) 89% identity in aa 1 - 253  
72 0.003348 0.1596 stm0849 yliB -19.23 0.023527 175 -- 193 139 -- 162 glutathione ABC transporter substrate-binding protein GsiB  
73 0.003444 0.1596 stm1437 ydhM -18.33 0.033340 6 -- 47 35 -- 81 TetR family transcriptional regulator  
76 0.003538 0.1596 stm3058 pepP -14.75 0.129287 129 -- 167 36 -- 78 Xaa-Pro aminopeptidase  
77 0.003608 0.1596 stm4473 yjgM -11.12 0.437983 252 -- 285 42 -- 82 GNAT family N-acetyltransferase  
78 0.003685 0.1596 stm0423 ispA -20.49 0.014403 269 -- 289 38 -- 58 (2E 6E)-farnesyl diphosphate synthase  
79 0.003723 0.1596 stm1723 trpE -16.56 0.065817 202 -- 256 41 -- 91 anthranilate synthase subunit I  
80 0.003756 0.1596 stm0132 ftsA -17.45 0.046754 189 -- 236 139 -- 186 cell division protein FtsA  
81 0.003764 0.1596 stm0121 ftsL -18.45 0.031843 91 -- 225 48 -- 186 cell division protein FtsL  
82 0.003783 0.1596 stm0710 ybgH -19.90 0.018103 103 -- 151 33 -- 90 MFS transporter  
83 0.003855 0.1596 stm1680 ycjI -14.22 0.156552 151 -- 200 34 -- 86 murein peptide amidase A  
84 0.003893 0.1596 stm2015 erfK -27.15 0.001054 109 -- 172 35 -- 90 L D-transpeptidase  
85 0.003998 0.1596 stm1098 hpaC -22.15 0.007534 132 -- 187 37 -- 90 4-hydroxyphenylacetate 3-monooxygenase reductase component  
86 0.004005 0.1596 stm1961 fliS -19.11 0.024619 1 -- 77 23 -- 90 flagellar export chaperone FliS  
87 0.004009 0.1596 stm2067 sbcB -11.70 0.367652 220 -- 292 35 -- 90 exodeoxyribonuclease I  
88 0.00402 0.1596 stm2651 yfiQ -16.02 0.080775 116 -- 159 50 -- 88 protein acetyltransferase  
89 0.004143 0.1596 stm2957 ygcA -15.40 0.101796 159 -- 208 35 -- 82 23S rRNA (uracil(1939)-C(5))-methyltransferase  
90 0.004161 0.1596 stm1124 putA -17.89 0.039481 159 -- 201 125 -- 168 trifunctional transcriptional regulator/proline dehydrogenase/L-glutamate gamma-semialdehyde dehydrogenase  
91 0.004202 0.1596 stm0387 yaiI -16.26 0.073758 5 -- 45 23 -- 58 similar to E. coli orf hypothetical protein (AAC73490.1); Blastp hit to AAC73490.1 (192 aa) 89% identity in aa 41 - 191  
92 0.004229 0.1596 stm0669 phoL -19.39 0.022083 221 -- 286 36 -- 89 putative phosphate starvation-inducible protein ATP-binding  
93 0.004254 0.1596 stm0408 secF -18.22 0.034847 7 -- 64 39 -- 91 protein-export membrane protein SecF  
94 0.0043 0.1596 stm3866 atpG -16.85 0.058909 206 -- 253 35 -- 80 F0F1 ATP synthase subunit gamma  
96 0.004303 0.1596 stm4243 yjbN -11.74 0.363864 272 -- 280 155 -- 163 tRNA dihydrouridine(20/20a) synthase DusA  
97 0.004849 0.1728 stm0832 ybiF -11.58 0.382043 25 -- 72 45 -- 91 threonine/homoserine exporter RhtA  
98 0.004857 0.1728 stm2811 proX -15.53 0.097032 195 -- 224 56 -- 84 glycine betaine ABC transporter substrate-binding protein  
99 0.004942 0.1728 stm0604 ybdM -18.77 0.028138 203 -- 249 36 -- 81 similar to E. coli orf hypothetical protein (AAC73702.1); Blastp hit to AAC73702.1 (209 aa) 77% identity in aa 5 - 209  
100 0.00495 0.1728 stm1879 ptrB -19.83 0.018631 144 -- 223 40 -- 120 oligopeptidase B  
101 0.005112 0.1728 stm0113 leuA -13.72 0.187230 187 -- 230 37 -- 84 2-isopropylmalate synthase  
102 0.005164 0.1728 stm0668 ybeY -18.23 0.034693 146 -- 193 37 -- 81 rRNA maturation RNase YbeY  
103 0.005167 0.1728 stm2670 aroF -17.31 0.049328 173 -- 242 25 -- 90 3-deoxy-7-phosphoheptulonate synthase  
104 0.005232 0.1728 stm0744 ybgC -16.85 0.058772 132 -- 175 54 -- 90 tol-pal system-associated acyl-CoA thioesterase  
105 0.005236 0.1728 stm4566 yjjI -12.28 0.305832 96 -- 137 40 -- 77 YjjI family glycine radical enzyme  
106 0.005253 0.1728 stm1172 flgM -15.84 0.086212 196 -- 254 36 -- 82 anti-sigma-28 factor FlgM  
107 0.00529 0.1728 stm0994 mukB -11.10 0.440174 5 -- 20 154 -- 167 cell division protein MukB  
108 0.005311 0.1728 stm2183 cdd -16.35 0.071230 31 -- 68 151 -- 187 cytidine deaminase  
109 0.005328 0.1728 stm3082 N/A -12.60 0.275269 106 -- 154 38 -- 90 galactonate oxidoreductase  
110 0.005337 0.1728 stm1920 cheW -12.58 0.277263 149 -- 192 51 -- 90 chemotaxis protein CheW  
111 0.005436 0.1728 stm2683 yfjB -15.36 0.103307 255 -- 299 43 -- 90 NAD(+) kinase  
112 0.005549 0.1728 stm0602 ybdH -14.01 0.169356 159 -- 193 39 -- 79 oxidoreductase  
113 0.005549 0.1728 stm2948 cysJ -13.61 0.194760 269 -- 298 56 -- 85 sulfite reductase [NADPH] flavoprotein subunit alpha  
114 0.005594 0.1728 stm4557 holD -13.75 0.185681 35 -- 94 141 -- 186 DNA polymerase III subunit psi  
115 0.005604 0.1728 stm0982 himD -16.93 0.057154 154 -- 192 37 -- 75 integration host factor subunit beta  
116 0.005629 0.1728 stm2662 rluD -17.46 0.046576 204 -- 257 36 -- 86 23S rRNA pseudouridine(1911/1915/1917) synthase  
117 0.005749 0.1738 stm2562 yfhA -19.31 0.022783 16 -- 66 47 -- 100 two-component system response regulator GlrR  
118 0.005761 0.1738 stm1840 yobG -17.14 0.052758 234 -- 267 153 -- 188 PhoP regulon feedback inhibition protein MgrB  
119 0.005831 0.1745 stm1998 umuD -19.31 0.022806 33 -- 72 46 -- 81 DNA polymerase V subunit UmuD  
120 0.006002 0.1758 stm2925 nlpD -17.26 0.050371 258 -- 274 153 -- 170 lipoprotein NlpD  
121 0.006021 0.1758 stm3903 ilvE -13.34 0.214101 130 -- 170 39 -- 78 branched chain amino acid aminotransferase  
122 0.00604 0.1758 stm2353 hisQ -14.65 0.134227 190 -- 212 140 -- 163 amino acid ABC transporter permease  
123 0.006073 0.1758 stm4355 yjeS -17.69 0.042665 80 -- 140 31 -- 90 putative Fe-S protein  
124 0.006123 0.1758 stm0794 bioB -18.46 0.031660 1 -- 37 38 -- 79 biotin synthase  
125 0.006333 0.1774 stm3094 yggJ -12.37 0.297521 35 -- 55 69 -- 89 putative cytoplasmic protein  
126 0.006333 0.1774 stm1584 ansP -14.21 0.157463 122 -- 184 36 -- 93 amino acid permease  
127 0.006343 0.1774 stm1751 hns -12.42 0.292757 1 -- 14 147 -- 162 transcriptional regulator  
128 0.006467 0.1774 stm3907 N/A -18.55 0.030594 118 -- 173 37 -- 89    
129 0.006472 0.1774 stm0158 acnB -11.80 0.356459 140 -- 172 33 -- 60 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase  
130 0.00652 0.1774 stm4228 malF -14.47 0.143021 162 -- 175 1 -- 15 maltose ABC transporter permease MalF  
131 0.006551 0.1774 stm3217 aer -17.88 0.039631 254 -- 298 36 -- 77 senses cellular redox state or proton motive force; similar to E. coli aerotaxis sensor receptor flavoprotein (AAC76107.1); Blastp hit to AAC76107.1 (506 aa) 83% identity in aa 1 - 506  
132 0.006673 0.1774 stm2677 ffh -17.54 0.045291 232 -- 275 38 -- 86 4.5S-RNP protein  
133 0.006689 0.1774 stm0831 dps -13.05 0.236755 141 -- 176 159 -- 184 DNA starvation/stationary phase protection protein Dps  
136 0.006805 0.1774 stm2812 N/A -16.76 0.060981 84 -- 153 36 -- 90 MFS transporter  
137 0.006825 0.1774 stm1196 acpP -14.14 0.161333 197 -- 223 36 -- 60 acyl carrier protein  
139 0.007115 0.182 stm0826 ybiN -18.61 0.029895 232 -- 282 36 -- 90 23S rRNA (adenine(1618)-N(6))-methyltransferase  
140 0.007169 0.182 stm3126 N/A -18.02 0.037639 66 -- 114 39 -- 91 putative amino acid transporter  
141 0.007251 0.182 stm2325 nuoE -19.46 0.021521 159 -- 233 56 -- 129 NADH-quinone oxidoreductase subunit E  
142 0.007269 0.182 stm4341 frdC -12.15 0.319206 131 -- 234 54 -- 160 fumarate reductase subunit C  
143 0.007336 0.182 stm2276 ubiG -14.65 0.134291 225 -- 278 36 -- 81 2-octaprenyl-6-hydroxy phenol methylase  
144 0.00736 0.182 stm4559 yjjG -11.80 0.356804 189 -- 218 128 -- 159 putative haloacid dehalogenase-like hydrolase  
145 0.007435 0.1826 stm1822 yoaB -15.17 0.110813 243 -- 269 162 -- 185 similar to E. coli orf hypothetical protein (AAC74879.1); Blastp hit to AAC74879.1 (130 aa) 92% identity in aa 17 - 130  
146 0.007509 0.1831 stm1510 ydfH -14.80 0.126744 211 -- 261 32 -- 88 GntR family transcriptional regulator  
147 0.007823 0.1845 stm3477 cysG -15.08 0.114738 192 -- 245 61 -- 111 uroporphyrinogen-III C-methyltransferase  
148 0.007836 0.1845 stm2318 nuoL -12.84 0.254324 144 -- 178 37 -- 76 NADH-quinone oxidoreductase subunit L  
149 0.007892 0.1845 stm2071 hisG -15.61 0.094042 166 -- 245 36 -- 100 ATP phosphoribosyltransferase  
150 0.007945 0.1845 stm2555 glyA -15.42 0.100951 252 -- 282 137 -- 168 serine hydroxymethyltransferase  
151 0.00796 0.1845 stm2365 folC -10.71 0.491716 269 -- 300 50 -- 78 bifunctional tetrahydrofolate synthase/dihydrofolate synthase  
152 0.008087 0.1845 stm0213 dapD -12.65 0.271269 222 -- 289 49 -- 104 2 3 4 5-tetrahydropyridine-2 6-dicarboxylate N-succinyltransferase  
153 0.008123 0.1845 stm2512 xseA -14.57 0.138273 215 -- 252 42 -- 82 exodeoxyribonuclease VII large subunit  
154 0.008185 0.1845 stm3738 yigC -11.16 0.433331 228 -- 246 55 -- 74 similar to E. coli orf hypothetical protein (AAC76670.1); Blastp hit to AAC76670.1 (223 aa) 94% identity in aa 19 - 223  
155 0.008213 0.1845 stm3112 mltC -21.66 0.009126 170 -- 198 62 -- 90 murein transglycosylase C  
156 0.008228 0.1845 stm1715 yciN -28.69 0.000575 104 -- 163 36 -- 90 similar to E. coli orf hypothetical protein (AAC74355.1); Blastp hit to AAC74355.1 (83 aa) 92% identity in aa 1 - 83  
157 0.008234 0.1845 stm0693 fur -16.04 0.080078 199 -- 253 31 -- 90 ferric iron uptake transcriptional regulator  
158 0.00827 0.1845 stm1712 acnA -14.47 0.143385 236 -- 294 48 -- 104 aconitate hydratase 1  
159 0.008305 0.1845 stm3625 yhjV -13.06 0.235438 203 -- 240 55 -- 86 transporter  
160 0.008331 0.1845 stm0002 thrA -15.10 0.113872 18 -- 81 44 -- 90 bifunctional aspartate kinase/homoserine dehydrogenase I  
161 0.008343 0.1845 stm3321 yhbH -14.15 0.160801 194 -- 246 48 -- 88 ribosomal subunit interface protein  
162 0.00849 0.1864 stm4221 pgi -15.16 0.111294 249 -- 289 56 -- 88 glucose-6-phosphate isomerase  
163 0.008532 0.1864 stm3093 endA -16.58 0.065141 135 -- 160 72 -- 101 deoxyribonuclease I  
164 0.008796 0.191 stm2932 ygbE -13.54 0.199482 240 -- 279 44 -- 82 putative inner membrane protein  
165 0.008886 0.1918 stm0281 N/A -13.47 0.204933 267 -- 289 36 -- 56 type VI secretion system-associated protein  
166 0.009028 0.1932 stm1173 flgA -14.00 0.169768 53 -- 102 33 -- 85 flagella basal body P-ring formation protein FlgA  
167 0.009062 0.1932 stm2673 rplS -14.99 0.118272 119 -- 180 38 -- 88 50S ribosomal protein L19  
168 0.009144 0.1938 stm3609 yhjE -18.08 0.036777 202 -- 261 35 -- 91 MFS transporter  
169 0.009276 0.1945 stm0495 ybaK -13.73 0.186840 16 -- 30 44 -- 58 aminoacyl-tRNA deacylase  
170 0.009347 0.1945 stm0477 acrR -17.70 0.042454 229 -- 246 74 -- 91 DNA-binding transcriptional repressor AcrR  
171 0.009384 0.1945 stm1741 N/A -12.47 0.287408 104 -- 168 71 -- 131 transporter  
172 0.009395 0.1945 stm3373 mreC -15.91 0.084075 179 -- 229 45 -- 87 rod shape-determining protein MreC  
173 0.009489 0.1945 stm3985 yigZ -14.68 0.132642 77 -- 135 33 -- 90 YigZ family protein  
174 0.009594 0.1945 stm1955 fliZ -12.61 0.274939 261 -- 282 33 -- 59 flagellar regulatory protein FliZ  
175 0.009595 0.1945 stm0268 N/A -12.50 0.284574 64 -- 117 80 -- 130 type VI secretion protein  
176 0.009613 0.1945 stm3378 N/A -14.56 0.138793 155 -- 243 45 -- 125 sulfoxide reductase heme-binding subunit YedZ  
177 0.009665 0.1945 stm0079 yaaU -14.30 0.152587 187 -- 218 40 -- 79 MFS transporter  
178 0.009774 0.1951 stm2667 pheA -14.20 0.157815 177 -- 228 36 -- 93 chorismate mutase  
179 0.009806 0.1951 stm3912 rep -13.00 0.240883 219 -- 287 22 -- 83 ATP-dependent DNA helicase Rep  
180 0.009911 0.1961 stm0199 stfF -15.44 0.100302 89 -- 133 44 -- 87 fimbrial protein  
181 0.01001 0.1966 stm2266 apbE -12.19 0.314808 267 -- 297 62 -- 90 FAD:protein FMN transferase ApbE  
182 0.01014 0.1966 stm3011 galR -12.96 0.243649 22 -- 54 60 -- 90 transcriptional regulator GalR  
183 0.01015 0.1966 stm0813 ybhP -18.40 0.032407 2 -- 54 36 -- 90 similar to E. coli orf hypothetical protein (AAC73877.1); Blastp hit to AAC73877.1 (253 aa) 86% identity in aa 1 - 253  
184 0.01016 0.1966 stm1690 pspA -15.34 0.103900 116 -- 183 38 -- 113 phage shock protein PspA  
185 0.01043 0.1967 stm1700 fabI -13.03 0.238331 75 -- 107 38 -- 76 enoyl-[acyl-carrier-protein] reductase  
186 0.01044 0.1967 stm1725 trpC -12.00 0.335236 146 -- 174 55 -- 86 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase  
187 0.01045 0.1967 stm4558 rimI -18.19 0.035171 194 -- 252 42 -- 91 ribosomal-protein-alanine N-acetyltransferase  
188 0.01049 0.1967 stm0290 N/A -13.50 0.202376 129 -- 157 48 -- 69    
189 0.01049 0.1967 stm0871 ybjM -13.57 0.197684 34 -- 53 71 -- 89 similar to E. coli orf hypothetical protein (AAC73935.1); Blastp hit to AAC73935.1 (125 aa) 72% identity in aa 1 - 125  
191 0.01055 0.1967 stm0634 ybeF -18.83 0.027435 210 -- 262 35 -- 82 putative LysR family transcriptional regulator  
192 0.01067 0.197 stm2650 yfiP -13.22 0.223534 188 -- 232 36 -- 90 DTW domain-containing protein  
193 0.01075 0.197 stm3734 rph -15.48 0.098722 165 -- 206 34 -- 78 ribonuclease PH  
194 0.01081 0.197 stm1954 fliY -13.82 0.181182 183 -- 228 153 -- 193 cystine ABC transporter substrate-binding protein  
195 0.01085 0.197 stm0549 fimZ -13.17 0.226725 219 -- 235 155 -- 171 DNA-binding response regulator  
196 0.01089 0.197 stm3904 ilvD -14.14 0.161583 237 -- 253 179 -- 194 dihydroxy-acid dehydratase  
197 0.01093 0.197 stm2924 rpoS -16.80 0.060020 191 -- 216 36 -- 60 RNA polymerase sigma factor RpoS  
198 0.01098 0.197 stm2803 N/A -14.51 0.140962 192 -- 262 36 -- 101 DNA-binding transcriptional regulator  
199 0.01101 0.197 stm3346 yhcM -12.83 0.254909 186 -- 228 33 -- 82 cell division protein ZapE  
200 0.01112 0.198 stm2809 proV -15.77 0.088450 57 -- 94 50 -- 85 glycine betaine/L-proline ABC transporter ATP-binding protein  

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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