68 |
0.003533 |
0.1645 |
b3650 |
spoT |
-9.27 |
0.026581 |
116 -- 140 |
36 -- 60 |
bifunctional (p)ppGpp synthetase II/ guanosine-3' 5'-bis pyrophosphate 3'-pyrophosphohydrolase |
|
_____________115________________________141\n_____________|__________________________|\n5'-UAG...CGCCA_____A___AA___________C___GAAUU...CUC-3'\n______________GGAAC__GC__GAGCAGGAAGC_GCU\n______________|:|||__||__:||||:|||||_:||\n______________CUUUG__CG__UUCGUUCUUCG_UGA\n3'-UUU...CCCUA_____AA__AA_______________AUUUU...CAA-5'\n_____________|__________________________|\n_____________61_________________________35\n |
130 -- 136 |
39 -- 45 |
-24.6059 kcal/mol |
9.08429 kcal/mol |
6.24973 kcal/mol |
115 141@LB@ | |@LB@5'-UAG...CGCCA A AA C GAAUU...CUC-3'@LB@ GGAAC GC GAGCAGGAAGC GCU@LB@ |:||| || :||||:||||| :||@LB@ CUUUG CG UUCGUUCUUCG UGA@LB@3'-UUU...CCCUA AA AA AUUUU...CAA-5'@LB@ | |@LB@ 61 35@LB@@LB@@LB@Energy -9.27 kcal/mol@LB@Hybridization Energy -24.6059 kcal/mol@LB@Unfolding Energy - mRNA 9.08429 kcal/mol@LB@Unfolding Energy - sRNA 6.24973 kcal/mol@LB@@LB@Position - mRNA 116 -- 140@LB@Position - sRNA 36 -- 60@LB@Position Seed - mRNA 130 -- 136@LB@Position Seed - sRNA 39 -- 45@LB@ |
63 |
0.003338 |
0.1645 |
b2671 |
ygaC |
-8.88 |
0.034356 |
231 -- 246 |
25 -- 40 |
uncharacterized protein |
|
_____________230______________247\n_____________|________________|\n5'-UAU...CGCGC____________G___GUUUU...AAA-3'\n______________GUACUUGAAAAA_UCG\n______________|:||||:|||||_|||\n______________CGUGAAUUUUUU_AGC\n3'-UUU...UUCUU____________A___AAUGU...CAA-5'\n_____________|________________|\n_____________41_______________24\n |
231 -- 237 |
34 -- 40 |
-15.9773 kcal/mol |
5.44668 kcal/mol |
1.64821 kcal/mol |
230 247@LB@ | |@LB@5'-UAU...CGCGC G GUUUU...AAA-3'@LB@ GUACUUGAAAAA UCG@LB@ |:||||:||||| |||@LB@ CGUGAAUUUUUU AGC@LB@3'-UUU...UUCUU A AAUGU...CAA-5'@LB@ | |@LB@ 41 24@LB@@LB@@LB@Energy -8.88 kcal/mol@LB@Hybridization Energy -15.9773 kcal/mol@LB@Unfolding Energy - mRNA 5.44668 kcal/mol@LB@Unfolding Energy - sRNA 1.64821 kcal/mol@LB@@LB@Position - mRNA 231 -- 246@LB@Position - sRNA 25 -- 40@LB@Position Seed - mRNA 231 -- 237@LB@Position Seed - sRNA 34 -- 40@LB@ |
59 |
0.003153 |
0.1645 |
b1220 |
ychO |
-8.71 |
0.038404 |
242 -- 262 |
37 -- 56 |
putative invasin |
|
_____________241___________________263\n_____________|_____________________|\n5'-UCA...UUACU________U______C_____AGCUA...CAA-3'\n______________CUUGCUUG_AGCAGG_GGUAC\n______________|||||||:_||||:|_:|:||\n______________GAACGAAU_UCGUUC_UCGUG\n3'-UUU...ACUUU_______________U_____AAUUU...CAA-5'\n_____________|_____________________|\n_____________57____________________36\n |
242 -- 248 |
50 -- 56 |
-24.8668 kcal/mol |
9.95535 kcal/mol |
6.20049 kcal/mol |
241 263@LB@ | |@LB@5'-UCA...UUACU U C AGCUA...CAA-3'@LB@ CUUGCUUG AGCAGG GGUAC@LB@ |||||||: ||||:| :|:||@LB@ GAACGAAU UCGUUC UCGUG@LB@3'-UUU...ACUUU U AAUUU...CAA-5'@LB@ | |@LB@ 57 36@LB@@LB@@LB@Energy -8.71 kcal/mol@LB@Hybridization Energy -24.8668 kcal/mol@LB@Unfolding Energy - mRNA 9.95535 kcal/mol@LB@Unfolding Energy - sRNA 6.20049 kcal/mol@LB@@LB@Position - mRNA 242 -- 262@LB@Position - sRNA 37 -- 56@LB@Position Seed - mRNA 242 -- 248@LB@Position Seed - sRNA 50 -- 56@LB@ |
66 |
0.003432 |
0.1645 |
b0882 |
clpA |
-7.45 |
0.084488 |
282 -- 290 |
34 -- 42 |
ATPase and specificity subunit of ClpA-ClpP ATP-dependent serine protease chaperone activity |
|
_____________281_______291\n_____________|_________|\n5'-UUU...CCGUC_________UUACU...CGC-3'\n______________GAGCACUUG\n______________:|||||||:\n______________UUCGUGAAU\n3'-UUU...CGUUC_________UUUUU...CAA-5'\n_____________|_________|\n_____________43________33\n |
284 -- 290 |
34 -- 40 |
-10.5586 kcal/mol |
1.49281 kcal/mol |
1.61613 kcal/mol |
281 291@LB@ | |@LB@5'-UUU...CCGUC UUACU...CGC-3'@LB@ GAGCACUUG@LB@ :|||||||:@LB@ UUCGUGAAU@LB@3'-UUU...CGUUC UUUUU...CAA-5'@LB@ | |@LB@ 43 33@LB@@LB@@LB@Energy -7.45 kcal/mol@LB@Hybridization Energy -10.5586 kcal/mol@LB@Unfolding Energy - mRNA 1.49281 kcal/mol@LB@Unfolding Energy - sRNA 1.61613 kcal/mol@LB@@LB@Position - mRNA 282 -- 290@LB@Position - sRNA 34 -- 42@LB@Position Seed - mRNA 284 -- 290@LB@Position Seed - sRNA 34 -- 40@LB@ |
64 |
0.003339 |
0.1645 |
b3166 |
truB |
-7.27 |
0.093914 |
187 -- 199 |
36 -- 48 |
tRNA pseudouridine synthase B: tRNA pseudouridine(55) synthase and putative tmRNA pseudouridine(342) synthase |
|
_____________186___________200\n_____________|_____________|\n5'-GGC...ACGAC_________G___AAUGA...AAC-3'\n______________AGCAAGGAG_ACU\n______________||||||:||_|||\n______________UCGUUCUUC_UGA\n3'-UUU...CGAAU_________G___AUUUU...CAA-5'\n_____________|_____________|\n_____________49____________35\n |
189 -- 195 |
40 -- 46 |
-16.8762 kcal/mol |
3.76451 kcal/mol |
5.83861 kcal/mol |
186 200@LB@ | |@LB@5'-GGC...ACGAC G AAUGA...AAC-3'@LB@ AGCAAGGAG ACU@LB@ ||||||:|| |||@LB@ UCGUUCUUC UGA@LB@3'-UUU...CGAAU G AUUUU...CAA-5'@LB@ | |@LB@ 49 35@LB@@LB@@LB@Energy -7.27 kcal/mol@LB@Hybridization Energy -16.8762 kcal/mol@LB@Unfolding Energy - mRNA 3.76451 kcal/mol@LB@Unfolding Energy - sRNA 5.83861 kcal/mol@LB@@LB@Position - mRNA 187 -- 199@LB@Position - sRNA 36 -- 48@LB@Position Seed - mRNA 189 -- 195@LB@Position Seed - sRNA 40 -- 46@LB@ |
61 |
0.003184 |
0.1645 |
b4112 |
basS |
-6.79 |
0.124428 |
7 -- 41 |
10 -- 54 |
sensory histidine kinase in two-component regulatory system with BasR |
|
_____________6______________________________________________42\n_____________|______________________________________________|\n_____5'-GGUUAA____CA_______C___C_____________GU_____________CUCUA...UAU-3'\n______________UGCU__AAGCAGG_AGU____________CG__GCAUCGGGAAAUU\n______________||||__|||||:|_||:____________||__:||:|:||||||:\n______________ACGA__UUCGUUC_UCG____________GC__UGUGGUCCUUUAG\n3'-UUU...UUUGA____A________U___UGAAUUUUUUAA__AA_____________ACUAC...CAA-5'\n_____________|______________________________________________|\n_____________55_____________________________________________9\n |
35 -- 41 |
10 -- 16 |
-31.3926 kcal/mol |
10.7631 kcal/mol |
13.8372 kcal/mol |
6 42@LB@ | |@LB@ 5'-GGUUAA CA C C GU CUCUA...UAU-3'@LB@ UGCU AAGCAGG AGU CG GCAUCGGGAAAUU@LB@ |||| |||||:| ||: || :||:|:||||||:@LB@ ACGA UUCGUUC UCG GC UGUGGUCCUUUAG@LB@3'-UUU...UUUGA A U UGAAUUUUUUAA AA ACUAC...CAA-5'@LB@ | |@LB@ 55 9@LB@@LB@@LB@Energy -6.79 kcal/mol@LB@Hybridization Energy -31.3926 kcal/mol@LB@Unfolding Energy - mRNA 10.7631 kcal/mol@LB@Unfolding Energy - sRNA 13.8372 kcal/mol@LB@@LB@Position - mRNA 7 -- 41@LB@Position - sRNA 10 -- 54@LB@Position Seed - mRNA 35 -- 41@LB@Position Seed - sRNA 10 -- 16@LB@ |
70 |
0.003574 |
0.1645 |
b0145 |
dksA |
-6.64 |
0.135564 |
191 -- 197 |
39 -- 45 |
transcriptional regulator of rRNA transcription; DnaK suppressor protein |
|
_____________190_____198\n_____________|_______|\n5'-AAU...UUAAG_______AACAU...AUG-3'\n______________GAGAAGC\n______________:||||||\n______________UUCUUCG\n3'-UUU...AUUCG_______UGAAU...CAA-5'\n_____________|_______|\n_____________46______38\n |
191 -- 197 |
39 -- 45 |
-7.63285 kcal/mol |
0.475666 kcal/mol |
0.514773 kcal/mol |
190 198@LB@ | |@LB@5'-AAU...UUAAG AACAU...AUG-3'@LB@ GAGAAGC@LB@ :||||||@LB@ UUCUUCG@LB@3'-UUU...AUUCG UGAAU...CAA-5'@LB@ | |@LB@ 46 38@LB@@LB@@LB@Energy -6.64 kcal/mol@LB@Hybridization Energy -7.63285 kcal/mol@LB@Unfolding Energy - mRNA 0.475666 kcal/mol@LB@Unfolding Energy - sRNA 0.514773 kcal/mol@LB@@LB@Position - mRNA 191 -- 197@LB@Position - sRNA 39 -- 45@LB@Position Seed - mRNA 191 -- 197@LB@Position Seed - sRNA 39 -- 45@LB@ |
67 |
0.003475 |
0.1645 |
b0416 |
nusB |
-6.41 |
0.154688 |
140 -- 154 |
27 -- 40 |
transcription antitermination protein |
|
_____________139_____________155\n_____________|_______________|\n5'-AAG...UGACC__________U____AAUGU...AGU-3'\n______________GCGCUUGAAA_GAUU\n______________||:|||:|||_:|||\n______________CGUGAAUUUU_UUAA\n3'-UUU...UUCUU_______________GCAAU...CAA-5'\n_____________|_______________|\n_____________41______________26\n |
142 -- 148 |
32 -- 38 |
-12.213 kcal/mol |
4.16264 kcal/mol |
1.6425 kcal/mol |
139 155@LB@ | |@LB@5'-AAG...UGACC U AAUGU...AGU-3'@LB@ GCGCUUGAAA GAUU@LB@ ||:|||:||| :|||@LB@ CGUGAAUUUU UUAA@LB@3'-UUU...UUCUU GCAAU...CAA-5'@LB@ | |@LB@ 41 26@LB@@LB@@LB@Energy -6.41 kcal/mol@LB@Hybridization Energy -12.213 kcal/mol@LB@Unfolding Energy - mRNA 4.16264 kcal/mol@LB@Unfolding Energy - sRNA 1.6425 kcal/mol@LB@@LB@Position - mRNA 140 -- 154@LB@Position - sRNA 27 -- 40@LB@Position Seed - mRNA 142 -- 148@LB@Position Seed - sRNA 32 -- 38@LB@ |
60 |
0.00317 |
0.1645 |
b0466 |
ybaM |
-6.37 |
0.157728 |
143 -- 158 |
25 -- 40 |
DUF2496 family protein |
|
_____________142_______________159\n_____________|_________________|\n5'-GCA...GCCAU_____GG__________AAAAC...CGC-3'\n______________GCGCU__AAAAAAU_CG\n______________||:||__|||||||_||\n______________CGUGA__UUUUUUA_GC\n3'-UUU...UUCUU_____A________A__AAUGU...CAA-5'\n_____________|_________________|\n_____________41________________24\n |
150 -- 156 |
28 -- 34 |
-11.3444 kcal/mol |
3.32327 kcal/mol |
1.64821 kcal/mol |
142 159@LB@ | |@LB@5'-GCA...GCCAU GG AAAAC...CGC-3'@LB@ GCGCU AAAAAAU CG@LB@ ||:|| ||||||| ||@LB@ CGUGA UUUUUUA GC@LB@3'-UUU...UUCUU A A AAUGU...CAA-5'@LB@ | |@LB@ 41 24@LB@@LB@@LB@Energy -6.37 kcal/mol@LB@Hybridization Energy -11.3444 kcal/mol@LB@Unfolding Energy - mRNA 3.32327 kcal/mol@LB@Unfolding Energy - sRNA 1.64821 kcal/mol@LB@@LB@Position - mRNA 143 -- 158@LB@Position - sRNA 25 -- 40@LB@Position Seed - mRNA 150 -- 156@LB@Position Seed - sRNA 28 -- 34@LB@ |
62 |
0.00332 |
0.1645 |
b1305 |
pspB |
-5.29 |
0.278747 |
189 -- 201 |
34 -- 46 |
psp operon transcription co-activator |
|
_____________188___________202\n_____________|_____________|\n5'-AUU...UCGUC_____________UGAGC...GUG-3'\n______________UAAGGAGUACUUA\n______________:|||:||:|||||\n______________GUUCUUCGUGAAU\n3'-UUU...AAUUC_____________UUUUU...CAA-5'\n_____________|_____________|\n_____________47____________33\n |
195 -- 201 |
34 -- 40 |
-14.7021 kcal/mol |
3.41245 kcal/mol |
5.99897 kcal/mol |
188 202@LB@ | |@LB@5'-AUU...UCGUC UGAGC...GUG-3'@LB@ UAAGGAGUACUUA@LB@ :|||:||:|||||@LB@ GUUCUUCGUGAAU@LB@3'-UUU...AAUUC UUUUU...CAA-5'@LB@ | |@LB@ 47 33@LB@@LB@@LB@Energy -5.29 kcal/mol@LB@Hybridization Energy -14.7021 kcal/mol@LB@Unfolding Energy - mRNA 3.41245 kcal/mol@LB@Unfolding Energy - sRNA 5.99897 kcal/mol@LB@@LB@Position - mRNA 189 -- 201@LB@Position - sRNA 34 -- 46@LB@Position Seed - mRNA 195 -- 201@LB@Position Seed - sRNA 34 -- 40@LB@ |