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CopraRNA 5774122

Input and runtime details for job 5774122 (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 5774122 (server version trunk)

?Job Submitted & Queued@ Fri Feb 16 15:30:38 CET 2018
?CopraRNA Started@ Fri Feb 16 20:16:08 CET 2018
?CopraRNA Finished & Post-Processing@ Fri Feb 16 23:32:42 CET 2018
?Post-Processing Finished@ Fri Feb 16 23:32:50 CET 2018
?Job Completed@ Fri Feb 16 23:33:10 CET 2018
 DIRECT ACCESS: http://rna.informatik.uni-freiburg.de/RetrieveResults.jsp?jobID=5774122&toolName=CopraRNA ( 30 days expiry )

Description of the job

FsrA

Output download complete results [zip]

Downloadable files

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


heatmap

? Conserved, identified interactions for NC_000964 Bacillus subtilis subsp. subtilis str. 168

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 3.729e-08 0.0001244 bsu14890 ctaC -17.27 0.009980 187 -- 199 23 -- 34 cytochrome c oxidase subunit 2  
2 2.736e-07 0.0004564 bsu10760 yisL -18.52 0.005045 172 -- 193 31 -- 51 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
3 5.299e-07 0.0005893 bsu18000 citB -22.45 0.000394 173 -- 202 21 -- 50 aconitate hydratase  
4 1.471e-05 0.01227 bsu32200 yutJ -17.92 0.007061 210 -- 239 21 -- 53 NADH dehydrogenase-like protein YutJ  
5 2.545e-05 0.01698 bsu22540 qcrC -19.98 0.002129 169 -- 196 23 -- 48 menaquinol-cytochrome c reductase cytochrome b/c subunit  
6 3.166e-05 0.01761 bsu12160 yjgC -18.77 0.004394 190 -- 206 10 -- 27 oxidoreductase bsu27220 bsu03310
7 4.152e-05 0.01979 bsu05670 ydgJ -17.13 0.010734 234 -- 258 25 -- 49 MarR family transcriptional regulator  
8 5.206e-05 0.02171 bsu37180 fadF -12.43 0.089383 154 -- 199 26 -- 74 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 17189250; Product type pe : enzyme'  
9 8.212e-05 0.03044 bsu07800 treP -22.21 0.000470 182 -- 210 21 -- 52 PTS system-trehalose-specific transporter subunit EIIBC  
10 0.0001049 0.035 bsu34190 yvfH -16.62 0.013859 188 -- 201 23 -- 36 L-lactate permease  
11 0.0001235 0.03747 bsu15610 sumT -12.35 0.092299 189 -- 208 22 -- 34 uroporphyrinogen-iii C-methyltransferase  
12 0.0001633 0.0454 bsu11410 yjbA -19.25 0.003321 222 -- 243 30 -- 52 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type pf: factor'  
13 0.0002088 0.05257 bsu22150 ypvA -19.04 0.003759 161 -- 194 26 -- 53 ATP-dependent helicase YpvA  
14 0.0002247 0.05257 bsu30160 ytcQ -17.33 0.009670 159 -- 223 10 -- 51 peptide ABC transporter substrate-binding protein  
15 0.0002364 0.05257 bsu19290 yozO -13.57 0.056229 184 -- 195 28 -- 39 Evidence 4: Homologs of previously reported genes of unknown function  
16 0.0002979 0.06212 bsu28440 sdhA -14.86 0.032148 176 -- 195 24 -- 44 succinate dehydrogenase flavoprotein subunit  
17 0.0003284 0.06216 bsu08690 ygaD -15.59 0.022949 198 -- 218 30 -- 49 ABC transporter ATP-binding protein  
18 0.00036 0.06216 bsu24510 yqhO -21.34 0.000873 175 -- 205 13 -- 44 Evidence 4: Homologs of previously reported genes of unknown function  
19 0.0003652 0.06216 bsu29920 ytmP -16.30 0.016289 3 -- 31 25 -- 51 phosphotransferase YtmP  
20 0.0003727 0.06216 bsu04690 rsbT -12.89 0.074349 161 -- 193 22 -- 51 serine/threonine protein kinase  
21 0.0003947 0.0627 bsu28260 leuC -16.01 0.018761 166 -- 191 26 -- 52 3-isopropylmalate dehydratase large subunit  
22 0.0004167 0.06318 bsu07570 yflS -5.44 0.672400 163 -- 208 8 -- 27 malate transporter YflS  
23 0.0004941 0.06638 bsu00930 cysE -16.71 0.013304 161 -- 195 22 -- 53 serine acetyltransferase  
24 0.0005065 0.06638 bsu23150 resA -19.55 0.002768 169 -- 191 24 -- 44 thiol-disulfide oxidoreductase ResA  
25 0.0005172 0.06638 bsu30210 bioD -10.94 0.155183 179 -- 210 28 -- 53 ATP-dependent dethiobiotin synthetase BioD  
26 0.0005174 0.06638 bsu28170 hemA -17.53 0.008676 171 -- 186 24 -- 36 glutamyl-tRNA reductase  
27 0.0005687 0.07027 bsu32550 yurJ -13.20 0.065709 183 -- 191 31 -- 39 ABC transporter ATP-binding protein  
28 0.0009752 0.1113 bsu00830 ctsR -15.39 0.025224 189 -- 206 23 -- 36 transcriptional regulator CtsR  
29 0.0009972 0.1113 bsu38140 qoxD -9.49 0.251109 150 -- 190 24 -- 51 quinol oxidase subunit 4  
30 0.001001 0.1113 bsu08780 ygaJ -16.90 0.012052 218 -- 231 24 -- 39 peptidase YgaJ  
31 0.001131 0.119 bsu15020 coaD -13.71 0.053189 186 -- 192 30 -- 36 phosphopantetheine adenylyltransferase  
32 0.001154 0.119 bsu32820 fadE -9.01 0.290043 236 -- 252 32 -- 52 acyl-CoA dehydrogenase  
33 0.001178 0.119 bsu14840 ylaN -15.06 0.029338 181 -- 208 8 -- 28 depletion of this protein in Bacillus subtilis results in defects in cell morphology; crystal structure of Staphylococcus protein shows homodimer; ligand binding protein  
34 0.001327 0.1302 bsu23550 mleA -19.34 0.003138 3 -- 24 31 -- 51 NAD-dependent malic enzyme 1  
35 0.001389 0.1324 bsu24570 gcvT -12.27 0.095214 256 -- 273 25 -- 46 aminomethyltransferase  
36 0.001585 0.1432 bsu03680 yclG -9.13 0.280303 226 -- 251 29 -- 52 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type pe: enzyme'  
37 0.00164 0.1432 bsu32390 yunF -13.99 0.047070 211 -- 231 31 -- 53 Evidence 4: Homologs of previously reported genes of unknown function  
38 0.001645 0.1432 bsu19540 yodB -7.66 0.420262 259 -- 271 37 -- 51 ArsR family transcriptional regulator  
39 0.001675 0.1432 bsu23240 ypzK -16.45 0.015090 173 -- 197 28 -- 52 riboflavin biosynthesis protein RibT  
40 0.001724 0.1438 bsu18440 gltD -13.77 0.051762 193 -- 208 22 -- 36 glutamate synthase [NADPH] small chain  
41 0.001775 0.1444 bsu36710 fdhD -11.37 0.133163 186 -- 192 30 -- 36 protein FdhD  
42 0.001862 0.1479 bsu40320 argI -8.56 0.330283 1 -- 17 32 -- 48 arginase  
43 0.00194 0.1492 bsu01370 adk -12.74 0.079154 128 -- 149 32 -- 52 adenylate kinase  
44 0.001968 0.1492 bsu14940 ylbA -14.48 0.038144 221 -- 240 24 -- 52 Evidence 4: Homologs of previously reported genes of unknown function  
45 0.002015 0.1494 bsu34040 yvfW -14.27 0.041807 34 -- 68 10 -- 49 lactate utilization protein B  
46 0.002102 0.1496 bsu35160 uvrA -18.29 0.005742 210 -- 232 21 -- 44 UvrABC system protein A  
47 0.002107 0.1496 bsu10620 addB -16.79 0.012734 176 -- 222 12 -- 44 ATP-dependent helicase/deoxyribonuclease subunit B  
48 0.002156 0.1498 bsu34050 yvfV -12.63 0.082536 177 -- 196 28 -- 46 lactate utilization protein A  
49 0.002227 0.1516 bsu11839 yjzE -19.04 0.003744 170 -- 194 25 -- 51 Evidence 5: No homology to any previously reported sequences; PubMedId: 11976315  
50 0.002285 0.1525 bsu22460 ypjH -13.49 0.058216 160 -- 194 23 -- 52 glycosyltransferase YpjH  
51 0.002362 0.1545 bsu28450 sdhC -14.17 0.043697 178 -- 219 14 -- 47 succinate dehydrogenase cytochrome b558 subunit  
52 0.002415 0.1549 bsu03320 nasB -8.41 0.344801 188 -- 199 36 -- 51 assimilatory nitrate reductase electron transfer subunit  
53 0.002724 0.1697 bsu06970 yesO -13.13 0.067695 188 -- 199 26 -- 36 ABC transporter substrate-binding protein  
54 0.002747 0.1697 bsu35790 yvyI -14.15 0.043919 186 -- 197 25 -- 36 mannose-6-phosphate isomerase YvyI  
55 0.002845 0.1725 bsu40380 yycI -20.10 0.001970 172 -- 209 12 -- 51 two-component system YycFG regulatory protein  
56 0.002918 0.1738 bsu04390 ydbA -13.95 0.047884 245 -- 258 25 -- 39 Evidence 4: Homologs of previously reported genes of unknown function  
57 0.003091 0.1809 bsu19720 yodR -13.42 0.059995 155 -- 217 11 -- 51 coenzyme A transferase subunit beta  
58 0.003185 0.1832 bsu24100 bkdR -13.90 0.048953 199 -- 241 21 -- 51 sigma L-dependent transcriptional regulator YqiR  
59 0.003314 0.1874 bsu01560 kbaA -8.60 0.327174 11 -- 30 33 -- 52 kinB-signaling pathway activation protein  
60 0.003464 0.1926 bsu03300 nasD -15.33 0.025906 190 -- 205 34 -- 52 nitrite reductase  
61 0.003607 0.1972 bsu06860 yezE -12.02 0.104394 226 -- 262 26 -- 52 TetR family transcriptional regulator  
62 0.003827 0.2059 bsu11360 appD -16.60 0.014008 157 -- 196 21 -- 48 oligopeptide transport ATP-binding protein AppD  
63 0.003897 0.2064 bsu14900 ctaD -14.39 0.039562 155 -- 192 22 -- 52 cytochrome c oxidase subunit 1  
64 0.004032 0.2071 bsu23050 fmnP -11.92 0.108419 30 -- 48 32 -- 51 riboflavin transporter FmnP  
65 0.004149 0.2071 bsu25230 yqxD -11.91 0.108824 196 -- 217 21 -- 43 Evidence 4: Homologs of previously reported genes of unknown function; PubMedId: 9387153  
66 0.004158 0.2071 bsu22770 mtrB -14.22 0.042769 173 -- 192 31 -- 51 transcription attenuation protein MtrB  
67 0.004159 0.2071 bsu31830 yueE -13.48 0.058566 169 -- 197 28 -- 51 phosphohydrolase YueE  
68 0.004453 0.2184 bsu22580 ypiB -13.80 0.051176 183 -- 197 21 -- 39 Evidence 4: Homologs of previously reported genes of unknown function; PubMedId: 16847875  
69 0.004753 0.2298 bsu24850 glcK -6.97 0.496286 33 -- 46 15 -- 29 glucokinase  
70 0.004864 0.2318 bsu03720 gerKB -15.05 0.029438 176 -- 191 30 -- 44 spore germination protein KB  
71 0.005061 0.2378 bsu02170 ybfB -12.87 0.075045 244 -- 269 24 -- 48 MFS transporter bsu03530
72 0.005249 0.2402 bsu31470 kapD -7.49 0.439018 141 -- 147 21 -- 27 3'-5' exonuclease KapD  
73 0.005255 0.2402 bsu21750 scuA -12.63 0.082513 190 -- 220 28 -- 51 SCO1 protein  
74 0.005527 0.2441 bsu14880 ctaB -11.75 0.115909 1 -- 10 34 -- 43 protoheme IX farnesyltransferase 2  
75 0.005596 0.2441 bsu19669 yoyF -14.84 0.032440 230 -- 255 26 -- 52 Evidence 5: No homology to any previously reported sequences  
76 0.005654 0.2441 bsu14240 rok -14.05 0.045854 178 -- 222 9 -- 42 repressor rok  
77 0.005688 0.2441 bsu35180 csbA -19.97 0.002143 87 -- 126 11 -- 50 general stress protein CsbA  
78 0.005707 0.2441 bsu18040 yneP -11.92 0.108570 96 -- 119 24 -- 45 acyl-CoA thioesterase  
79 0.005838 0.2448 bsu25980 yqbT -11.66 0.119794 52 -- 65 32 -- 53 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type ps: structure' bsu12730
80 0.005932 0.2448 bsu24430 spoIIIAA -11.72 0.117179 88 -- 116 28 -- 52 stage III sporulation protein AA  
81 0.005945 0.2448 bsu06390 yebD -16.11 0.017881 267 -- 291 30 -- 53 Evidence 5: No homology to any previously reported sequences  
82 0.006245 0.254 bsu12400 yjnA -14.90 0.031572 235 -- 273 19 -- 53 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 15849754 16850406; Product type pm: membrane component'  
83 0.006595 0.2588 bsu17210 pksN -11.93 0.108023 61 -- 115 29 -- 70 polyketide synthase PksN  
84 0.006671 0.2588 bsu14270 moeB -18.74 0.004465 187 -- 207 32 -- 51 molybdopterin-synthase adenylyltransferase  
85 0.006705 0.2588 bsu28790 araB -13.91 0.048694 184 -- 192 30 -- 38 ribulokinase  
86 0.006791 0.2588 bsu17010 ymcB -10.99 0.152529 169 -- 190 33 -- 52 (dimethylallyl)adenosine tRNA methylthiotransferase MiaB  
87 0.00681 0.2588 bsu29140 citZ -14.51 0.037644 213 -- 231 27 -- 52 citrate synthase 2  
88 0.006855 0.2588 bsu03770 rapC -14.27 0.041792 179 -- 211 12 -- 42 response regulator aspartate phosphatase C  
89 0.00694 0.2588 bsu06230 iolT -9.37 0.260314 174 -- 193 31 -- 49 major myo-inositol transporter IolT  
90 0.006982 0.2588 bsu40920 yyaF -12.87 0.074972 6 -- 31 25 -- 50 GTP-dependent nucleic acid-binding protein EngD  
91 0.007102 0.2604 bsu36520 glnK -7.98 0.387566 247 -- 267 32 -- 49 nitrogen regulatory PII-like protein  
92 0.007313 0.2652 bsu34470 yveA -16.72 0.013215 240 -- 265 25 -- 47 aspartate-proton symporter  
93 0.007837 0.2778 bsu33430 yvgQ -5.79 0.632053 172 -- 180 38 -- 46 sulfite reductase [NADPH] hemoprotein beta-component  
94 0.007849 0.2778 bsu27000 yraB -9.14 0.279232 183 -- 193 29 -- 39 MerR family transcriptional regulator  
95 0.007929 0.2778 bsu40080 gntZ -7.93 0.392252 74 -- 93 34 -- 54 6-phosphogluconate dehydrogenase  
96 0.00803 0.2778 bsu39710 iolF -10.11 0.206009 172 -- 191 30 -- 53 minor myo-inositol transporter IolF  
97 0.008118 0.2778 bsu16450 cheC -9.97 0.215069 178 -- 195 28 -- 47 Chey-P phosphatase CheC  
98 0.008247 0.2778 bsu19360 odhB -11.30 0.136272 146 -- 191 23 -- 51 dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex  
99 0.00842 0.2778 bsu19470 yojF -13.80 0.051174 184 -- 193 30 -- 39 Evidence 4: Homologs of previously reported genes of unknown function  
100 0.008436 0.2778 bsu35250 ftsX -12.75 0.078592 182 -- 188 30 -- 36 cell division protein FtsX  
101 0.008451 0.2778 bsu32150 paiA -11.07 0.148459 77 -- 92 23 -- 39 protease synthase and sporulation negative regulatory protein PAI 1  
102 0.008773 0.2778 bsu06170 ydjE -10.58 0.175640 264 -- 284 30 -- 50 sugar kinase YdjE  
103 0.008788 0.2778 bsu06070 ydiP -8.66 0.321247 183 -- 194 27 -- 44 BsuMI modification methylase subunit YdiP bsu20250
104 0.009018 0.2778 bsu08080 acoC -12.10 0.101314 188 -- 194 30 -- 36 dihydrolipoyllysine-residue acetyltransferase component of acetoin cleaving system  
105 0.009074 0.2778 bsu03220 ycgO -6.59 0.539508 105 -- 111 67 -- 73 symporter  
106 0.009109 0.2778 bsu01390 infA -12.86 0.075307 175 -- 189 30 -- 45 translation initiation factor IF-1  
107 0.009163 0.2778 bsu12780 xepA -15.86 0.020153 79 -- 99 29 -- 48 phage-like element PBSX protein XepA  
108 0.009234 0.2778 bsu12360 exuT -9.24 0.271038 118 -- 128 32 -- 43 hexuronate transporter  
109 0.009307 0.2778 bsu07880 yfkJ -15.70 0.021808 288 -- 299 30 -- 51 low molecular weight protein-tyrosine-phosphatase YfkJ  
110 0.009311 0.2778 bsu18230 yngG -6.09 0.597733 269 -- 285 32 -- 53 hydroxymethylglutaryl-CoA lyase YngG  
111 0.009313 0.2778 bsu16780 rnjB -13.26 0.064171 155 -- 177 29 -- 51 ribonuclease J 2  
112 0.009326 0.2778 bsu13200 rsbRB -15.32 0.026068 265 -- 282 32 -- 51 RsbT co-antagonist protein RsbRB bsu19450
113 0.00948 0.2799 bsu31960 dhbF -9.87 0.222399 16 -- 37 32 -- 53 dimodular nonribosomal peptide synthase  
114 0.009837 0.2871 bsu30580 ytmA -11.73 0.116519 193 -- 212 33 -- 52 peptidase YtmA  
115 0.009897 0.2871 bsu22830 gpsA -18.23 0.005947 227 -- 241 21 -- 34 glycerol-3-phosphate dehydrogenase  
116 0.01008 0.2881 bsu32800 yusH -9.74 0.231897 187 -- 194 31 -- 38 glycine cleavage system H protein  
117 0.0101 0.2881 bsu39670 iolJ -13.86 0.049938 182 -- 196 29 -- 51 6-phospho-5-dehydro-2-deoxy-D-gluconate aldolase  
118 0.01022 0.2883 bsu19370 sucA -9.59 0.243554 183 -- 190 23 -- 30 2-oxoglutarate dehydrogenase subunit E1  
119 0.01041 0.2883 bsu11480 yjbB -12.30 0.094041 10 -- 19 22 -- 31 MFS transporter bsu07460
120 0.01063 0.2883 bsu25190 cccA -10.44 0.184184 169 -- 199 18 -- 38 cytochrome c-550  
121 0.01072 0.2883 bsu28520 etfA -20.27 0.001775 7 -- 28 32 -- 50 electron transfer flavoprotein subunit alpha  
122 0.01077 0.2883 bsu18910 rapK -11.72 0.116857 189 -- 197 28 -- 36 response regulator aspartate phosphatase K  
123 0.01093 0.2883 bsu22970 ypbH -15.60 0.022809 254 -- 275 27 -- 45 adapter protein MecA  
124 0.01102 0.2883 bsu36860 atpE -15.23 0.027175 263 -- 293 30 -- 52 ATP synthase subunit c  
125 0.01105 0.2883 bsu27350 yrrN -18.26 0.005831 285 -- 299 16 -- 30 protease YrrN  
126 0.0111 0.2883 bsu16220 fliG -14.68 0.034861 264 -- 293 1 -- 29 flagellar motor switch protein FliG  
127 0.01117 0.2883 bsu05980 tatAY -16.78 0.012784 171 -- 194 21 -- 43 Sec-independent protein translocase protein TatAy  
128 0.01143 0.2883 bsu29690 acuA -15.81 0.020690 248 -- 269 30 -- 52 acetoin utilization protein AcuA  
129 0.01144 0.2883 bsu36230 ywqF -11.45 0.129133 185 -- 195 31 -- 41 UDP-glucose 6-dehydrogenase YwqF  
130 0.01149 0.2883 bsu02620 phoD -13.55 0.056825 174 -- 193 30 -- 50 alkaline phosphatase D  
131 0.01151 0.2883 bsu03110 ycgH -12.02 0.104581 161 -- 192 27 -- 50 transporter  
132 0.01159 0.2883 bsu33140 yvqJ -14.19 0.043338 185 -- 204 31 -- 52 MFS transporter  
133 0.01175 0.2883 bsu11610 ppnK -12.45 0.088788 273 -- 294 32 -- 53 inorganic polyphosphate/ATP-NAD kinase 1  
134 0.01184 0.2883 bsu01450 cbiO -8.85 0.304208 221 -- 231 32 -- 43 energy-coupling factor transporter ATP-binding protein EcfA1  
135 0.01203 0.2883 bsu09920 yhaN -10.31 0.192319 8 -- 29 28 -- 47 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 16267290; Product type pe : enzyme'  
136 0.01205 0.2883 bsu35319 yvzG -14.21 0.042782 258 -- 272 27 -- 43 Evidence 4: Homologs of previously reported genes of unknown function  
137 0.01211 0.2883 bsu27850 nadA -8.79 0.309443 168 -- 191 32 -- 52 quinolinate synthase A  
138 0.01215 0.2883 bsu17940 yneI -15.06 0.029368 176 -- 197 30 -- 52 plasmid maintenance protein CcdB  
139 0.01217 0.2883 bsu30960 glgD -11.28 0.137516 171 -- 191 30 -- 50 glycogen biosynthesis protein GlgD  
140 0.01224 0.2883 bsu36480 ywoD -6.33 0.569704 31 -- 37 66 -- 72 MFS transporter  
141 0.01225 0.2883 bsu32310 yutD -11.41 0.131333 145 -- 158 24 -- 40 Evidence 4: Homologs of previously reported genes of unknown function; PubMedId: 12770717  
142 0.01236 0.2883 bsu37940 ywdJ -14.78 0.033255 157 -- 193 27 -- 52 purine permease YwdJ  
143 0.01244 0.2883 bsu13980 pbpH -18.09 0.006437 121 -- 135 29 -- 45 penicillin-binding enzyme for formation of rod-shaped peptidoglycan cell wall  
144 0.01244 0.2883 bsu15720 def -10.99 0.152648 175 -- 193 31 -- 50 peptide deformylase  
145 0.01267 0.2913 bsu36760 murAA -10.92 0.156018 188 -- 194 30 -- 36 UDP-N-acetylglucosamine 1-carboxyvinyltransferase 1  
146 0.01275 0.2913 bsu00450 sspF -8.40 0.345478 283 -- 295 24 -- 38 small acid-soluble spore protein SspF  
147 0.013 0.2949 bsu12910 proG -10.46 0.183122 211 -- 241 23 -- 53 pyrroline-5-carboxylate reductase 3  
148 0.01313 0.296 bsu02100 cypC -16.43 0.015277 151 -- 198 11 -- 53 fatty-acid peroxygenase  
149 0.01325 0.2966 bsu07610 citM -7.43 0.445360 149 -- 162 15 -- 27 Mg(2+)/citrate complex secondary transporter  
150 0.01344 0.2966 bsu27040 levG -16.98 0.011562 166 -- 191 30 -- 50 PTS system-fructose-specific transporter subunit IID  
151 0.01347 0.2966 bsu25570 comEC -9.44 0.254651 59 -- 89 9 -- 50 ComE operon protein 3  
152 0.01351 0.2966 bsu25600 comER -9.59 0.243237 173 -- 194 30 -- 51 ComE operon protein 4  
153 0.01377 0.2994 bsu37510 pbpG -15.25 0.026855 95 -- 111 23 -- 38 penicillin-binding protein 2D  
154 0.01388 0.2994 bsu23480 dacF -14.01 0.046761 175 -- 192 31 -- 51 D-alanyl-D-alanine carboxypeptidase DacF  
155 0.01391 0.2994 bsu24780 yqgY -10.29 0.193646 188 -- 194 30 -- 36 Evidence 4: Homologs of previously reported genes of unknown function  
156 0.0141 0.3008 bsu23600 yqxK -15.33 0.025853 66 -- 91 32 -- 51 Evidence 4: Homologs of previously reported genes of unknown function  
157 0.01433 0.3008 bsu38150 qoxC -14.65 0.035334 274 -- 297 30 -- 53 quinol oxidase subunit 3  
158 0.01436 0.3008 bsu10130 hemH -12.69 0.080628 178 -- 227 6 -- 44 ferrochelatase  
159 0.01439 0.3008 bsu00560 spoVT -10.85 0.160189 242 -- 254 41 -- 53 stage V sporulation protein T  
160 0.01451 0.3008 bsu30080 yteV -11.71 0.117611 279 -- 298 34 -- 53 sporulation protein cse60  
161 0.01452 0.3008 bsu04700 rsbU -15.42 0.024826 142 -- 163 16 -- 38 phosphoserine phosphatase RsbU  
162 0.01461 0.3008 bsu28700 ysfE -18.20 0.006050 31 -- 59 26 -- 51 Evidence 5: No homology to any previously reported sequences bsu26940
163 0.01533 0.3122 bsu19639 yoyE -15.95 0.019304 185 -- 198 25 -- 39 Evidence 4: Homologs of previously reported genes of unknown function  
164 0.01535 0.3122 bsu39720 iolE -13.03 0.070250 182 -- 189 30 -- 37 inosose dehydratase  
165 0.01546 0.3127 bsu02230 purT -12.11 0.100898 185 -- 195 30 -- 39 phosphoribosylglycinamide formyltransferase  
166 0.01583 0.3152 bsu38190 galT -8.42 0.343831 170 -- 181 16 -- 26 galactose-1-phosphate uridylyltransferase  
167 0.01619 0.3152 bsu31500 yuxK -13.98 0.047449 182 -- 199 26 -- 51 Evidence 4: Homologs of previously reported genes of unknown function  
168 0.01631 0.3152 bsu14170 ykuP -12.43 0.089417 80 -- 100 11 -- 27 flavodoxin-2  
169 0.01639 0.3152 bsu07850 yfkM -11.33 0.135062 186 -- 208 22 -- 34 general stress protein 18  
170 0.0164 0.3152 bsu13090 ykkC -8.27 0.358617 162 -- 212 23 -- 55 multidrug resistance protein  
171 0.01646 0.3152 bsu04650 endB -11.87 0.110785 167 -- 193 29 -- 53 antitoxin EndoAI  
172 0.01654 0.3152 bsu29680 acsA -11.36 0.133506 267 -- 288 32 -- 52 acetyl-CoA synthetase  
173 0.01667 0.3152 bsu28970 ytxB -13.17 0.066474 182 -- 201 13 -- 34 tvp38/tmem64 family membrane protein YtxB  
174 0.01668 0.3152 bsu22210 yprB -13.05 0.069799 168 -- 191 31 -- 53 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type pe: enzyme'  
175 0.01672 0.3152 bsu04630 ydcC -11.64 0.120416 196 -- 203 27 -- 34 sporulation protein YdcC  
176 0.01673 0.3152 bsu08790 thiC -9.56 0.245346 273 -- 280 31 -- 38 phosphomethylpyrimidine synthase  
177 0.01681 0.3152 bsu00910 ispF -14.14 0.044127 219 -- 247 31 -- 51 2-D-methyl-D-erythritol 2 4-cyclodiphosphate synthase  
178 0.01684 0.3152 bsu09460 ctrA -17.20 0.010320 182 -- 213 20 -- 50 amino acid permease  
179 0.01703 0.3152 bsu08425 mprF -11.09 0.146985 133 -- 167 22 -- 52 phosphatidylglycerol lysyltransferase  
180 0.01704 0.3152 bsu28380 gerM -9.54 0.246988 269 -- 291 32 -- 52 spore germination protein GerM  
181 0.0171 0.3152 bsu32040 yuiF -15.17 0.027943 179 -- 194 29 -- 51 amino acid transporter YuiF  
182 0.01724 0.3161 bsu22340 nth -14.82 0.032761 30 -- 59 25 -- 52 endonuclease III  
183 0.01776 0.3237 bsu08550 sspK -13.38 0.060997 172 -- 193 31 -- 48 small acid-soluble spore protein K  
184 0.01795 0.3254 bsu30470 ytzC -13.40 0.060457 189 -- 197 28 -- 36 Evidence 4: Homologs of previously reported genes of unknown function  
185 0.01858 0.3269 bsu27560 hisS -8.40 0.345340 122 -- 132 25 -- 38 histidine--tRNA ligase  
186 0.01872 0.3269 bsu09880 yhaR -10.74 0.166509 137 -- 152 16 -- 29 enoyl-CoA hydratase/isomerase YhaR  
187 0.01872 0.3269 bsu10530 ntdC -12.62 0.082941 177 -- 192 32 -- 53 NTD biosynthesis operon putative oxidoreductase NtdC  
188 0.01873 0.3269 bsu10750 yisK -12.58 0.084103 165 -- 222 21 -- 51 'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; Product type pe: enzyme'  
189 0.01911 0.3269 bsu24290 xseB -12.91 0.073825 187 -- 193 30 -- 36 exodeoxyribonuclease 7 small subunit  
190 0.01911 0.3269 bsu05370 ydfD -12.16 0.099313 269 -- 294 11 -- 36 GntR family transcriptional regulator bsu10880
191 0.01913 0.3269 bsu37760 rocC -14.43 0.038902 267 -- 280 26 -- 36 amino acid permease RocC  
192 0.01921 0.3269 bsu12649 ykzM -11.69 0.118448 82 -- 103 11 -- 32 Evidence 4: Homologs of previously reported genes of unknown function bsu26089
193 0.01926 0.3269 bsu04460 dctR -12.61 0.083358 128 -- 157 20 -- 50 C4-dicarboxylate response regulator DctR  
194 0.01929 0.3269 bsu14860 pycA -10.87 0.159030 149 -- 193 23 -- 51 pyruvate carboxylase  
195 0.01942 0.3269 bsu00690 ftsH -11.53 0.125763 258 -- 269 21 -- 33 ATP-dependent zinc metalloprotease FtsH  
196 0.01947 0.3269 bsu15810 spoVM -12.63 0.082660 188 -- 194 30 -- 36 stage V sporulation protein M  
197 0.0195 0.3269 bsu04670 rsbRA -10.67 0.170227 19 -- 37 34 -- 52 RsbT co-antagonist protein RsbRA  
198 0.0197 0.3269 bsu08980 yhbH -11.85 0.111658 189 -- 195 30 -- 36 stress response UPF0229 protein YhbH  
199 0.01988 0.3269 bsu36590 clsA -10.32 0.192119 169 -- 195 28 -- 48 cardiolipin synthase  
200 0.01989 0.3269 bsu30150 ytdP -13.03 0.070310 188 -- 210 28 -- 52 AraC family transcriptional regulator  

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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