| 183 |
0.008402 |
0.1751 |
bsu03010 |
amhX |
-13.44 |
0.069669 |
23 -- 92 |
7 -- 86 |
amidohydrolase AmhX |
|
_____________22_______________________________________________________________________________________93\n_____________|________________________________________________________________________________________|\n5'-AAA...UCUUA____G____U______GC____________________AU___GAUCCA__________________________A______UA____GAAUA...CUU-3'\n______________GGCU_UGUU_CGG_CU__UGGCA________UACUCAU__UUC______UCCCC___UCU_____GUUUGAAAAU__UUAAU__UUCU\n______________||||_:|||_|::_||__|||||________|||:|||__:||______|||||___|||_____:||||||||:__|||||__||||\n______________CCGA_GCAA_GUU_GA__ACCGU________AUGGGUA__GAG______AGGGG___AGA_____UAAACUUUUG__AAUUA__AAGA\n3'-AUU...ACUUA____A____C___A_________UUGUUAGC____________AAUA_______UAA___AACUU__________CG___________AAACAA-5'\n_____________|________________________________________________________________________________________|\n_____________87_______________________________________________________________________________________6\n |
45 -- 51 |
51 -- 57 |
-41.3184 kcal/mol |
11.5757 kcal/mol |
17.8015 kcal/mol |
22 93@LB@ | |@LB@5'-AAA...UCUUA G U GC AU GAUCCA A UA GAAUA...CUU-3'@LB@ GGCU UGUU CGG CU UGGCA UACUCAU UUC UCCCC UCU GUUUGAAAAU UUAAU UUCU@LB@ |||| :||| |:: || ||||| |||:||| :|| ||||| ||| :||||||||: ||||| ||||@LB@ CCGA GCAA GUU GA ACCGU AUGGGUA GAG AGGGG AGA UAAACUUUUG AAUUA AAGA@LB@3'-AUU...ACUUA A C A UUGUUAGC AAUA UAA AACUU CG AAACAA-5'@LB@ | |@LB@ 87 6@LB@@LB@@LB@Energy -13.44 kcal/mol@LB@Hybridization Energy -41.3184 kcal/mol@LB@Unfolding Energy - mRNA 11.5757 kcal/mol@LB@Unfolding Energy - sRNA 17.8015 kcal/mol@LB@@LB@Position - mRNA 23 -- 92@LB@Position - sRNA 7 -- 86@LB@Position Seed - mRNA 45 -- 51@LB@Position Seed - sRNA 51 -- 57@LB@ |
| 184 |
0.008461 |
0.1751 |
bsu09120 |
dgcK |
-13.04 |
0.083992 |
38 -- 184 |
37 -- 168 |
diguanylate cyclase |
|
_____________37______________________________________185\n_____________|_______________________________________|\n5'-CAU...AAGUC___AA_______AAACUCUCCCUUCAA____________UACUA...GCA-3'\n______________UCC__AGCAGGU________________AUUUUCUCAUU\n______________|||__||||:||________________|:||||||||:\n______________AGG__UCGUUCA________________UGAAAGAGUAG\n3'-AUU...GUAAC___CG_______AGGUAUAUUACAACAG___________AAGUU...CAA-5'\n_____________|_______________________________________|\n_____________169_____________________________________36\n |
55 -- 61 |
102 -- 108 |
-22.9941 kcal/mol |
2.75938 kcal/mol |
10.7301 kcal/mol |
37 185@LB@ | |@LB@5'-CAU...AAGUC AA AAACUCUCCCUUCAA UACUA...GCA-3'@LB@ UCC AGCAGGU AUUUUCUCAUU@LB@ ||| ||||:|| |:||||||||:@LB@ AGG UCGUUCA UGAAAGAGUAG@LB@3'-AUU...GUAAC CG AGGUAUAUUACAACAG AAGUU...CAA-5'@LB@ | |@LB@ 169 36@LB@@LB@@LB@Energy -13.04 kcal/mol@LB@Hybridization Energy -22.9941 kcal/mol@LB@Unfolding Energy - mRNA 2.75938 kcal/mol@LB@Unfolding Energy - sRNA 10.7301 kcal/mol@LB@@LB@Position - mRNA 38 -- 184@LB@Position - sRNA 37 -- 168@LB@Position Seed - mRNA 55 -- 61@LB@Position Seed - sRNA 102 -- 108@LB@ |
| 154 |
0.00707 |
0.1751 |
bsu07830 |
yfkO |
-12.90 |
0.089530 |
138 -- 152 |
158 -- 172 |
NAD(P)H nitroreductase YfkO |
|
_____________137____________153\n_____________|______________|\n5'-GGA...GUACU______________UAAUG...AAU-3'\n______________UUUACUUUUUAUCA\n______________||||||:||:||||\n______________AAAUGAGAAGUAGU\n3'-AUU...AAAAA______________UGUCC...CAA-5'\n_____________|______________|\n_____________173____________157\n |
146 -- 152 |
158 -- 164 |
-13.59 kcal/mol |
1.38023 kcal/mol |
1.02713 kcal/mol |
137 153@LB@ | |@LB@5'-GGA...GUACU UAAUG...AAU-3'@LB@ UUUACUUUUUAUCA@LB@ ||||||:||:||||@LB@ AAAUGAGAAGUAGU@LB@3'-AUU...AAAAA UGUCC...CAA-5'@LB@ | |@LB@ 173 157@LB@@LB@@LB@Energy -12.90 kcal/mol@LB@Hybridization Energy -13.59 kcal/mol@LB@Unfolding Energy - mRNA 1.38023 kcal/mol@LB@Unfolding Energy - sRNA 1.02713 kcal/mol@LB@@LB@Position - mRNA 138 -- 152@LB@Position - sRNA 158 -- 172@LB@Position Seed - mRNA 146 -- 152@LB@Position Seed - sRNA 158 -- 164@LB@ |
| 157 |
0.007221 |
0.1751 |
bsu40660 |
yybF |
-12.55 |
0.105157 |
243 -- 270 |
125 -- 152 |
MFS transporter |
|
_____________242__________________________271\n_____________|____________________________|\n5'-UGU...AAAUU_____U__U__C_____U__________AUACA...AGC-3'\n______________ACGUU_GC_UU_UUCGC_GCGGGUUUCA\n______________||:||_:|_||_|:|||_||::|||:||\n______________UGUAA_UG_AA_AGGCG_CGUUCAAGGU\n3'-AUU...UGUCC_____C__U__C_____U__________AUAUU...CAA-5'\n_____________|____________________________|\n_____________153__________________________124\n |
264 -- 270 |
125 -- 131 |
-24.436 kcal/mol |
4.92439 kcal/mol |
8.98549 kcal/mol |
242 271@LB@ | |@LB@5'-UGU...AAAUU U U C U AUACA...AGC-3'@LB@ ACGUU GC UU UUCGC GCGGGUUUCA@LB@ ||:|| :| || |:||| ||::|||:||@LB@ UGUAA UG AA AGGCG CGUUCAAGGU@LB@3'-AUU...UGUCC C U C U AUAUU...CAA-5'@LB@ | |@LB@ 153 124@LB@@LB@@LB@Energy -12.55 kcal/mol@LB@Hybridization Energy -24.436 kcal/mol@LB@Unfolding Energy - mRNA 4.92439 kcal/mol@LB@Unfolding Energy - sRNA 8.98549 kcal/mol@LB@@LB@Position - mRNA 243 -- 270@LB@Position - sRNA 125 -- 152@LB@Position Seed - mRNA 264 -- 270@LB@Position Seed - sRNA 125 -- 131@LB@ |
| 177 |
0.008148 |
0.1751 |
bsu37320 |
narK |
-12.38 |
0.113512 |
147 -- 292 |
34 -- 178 |
nitrite extrusion protein |
|
_____________146________________________________________________________________________________________________________________________________________________________293\n_____________|__________________________________________________________________________________________________________________________________________________________|\n5'-CAA...UUGGC__G_______AU____A___UGAUU_____AU_____AAA_G___________A_____CAACC__CAA___A___AA_____G___C___CAUUAA______G__G___________UU______UGG_____G_________CA________CCAAAUCA-3'\n______________UA_UUUUUGU__GAUA_GAC_____AUUGA__CAUUG___G_GGCAAG__CCA_AUGAU_____GU___CAC_UUC__UUAUC_UUA_AGU________GCUU_GU_GCAG____GGU__AUGGUU___GUGCU_AUUUC__AU__CUCAUUUC\n______________||_|:||::|__:|:|_|||_____|||||__|||||___|_:|||||__|||_||:||_____||___|||_|||__|:|||_|:|_|||________||||_||_|||:____||:__|:::|:___||:|:_||:||__||__|:||||||\n______________AU_AGAAGUA__UUGU_CUG_____UAACU__GUAAC___C_UCGUUC__GGU_UAUUA_____CA___GUG_AAG__AGUAG_AGU_UCA________CGAA_CA_CGUU____CCG__UGUUAG___CAUGG_UAGAG__UA__GGGUAAAG\n3'-AUU...AAAAA__G_______G_____C____________________AGG_G______AA___A____________ACA___A__________A___U___UUACUUAC____G__A____AGAA___UU______________G_____AA__AG________AAACU...CAA-5'\n_____________|__________________________________________________________________________________________________________________________________________________________|\n_____________179________________________________________________________________________________________________________________________________________________________33\n |
286 -- 292 |
34 -- 40 |
-71.0788 kcal/mol |
32.1142 kcal/mol |
31.2836 kcal/mol |
146 293@LB@ | |@LB@5'-CAA...UUGGC G AU A UGAUU AU AAA G A CAACC CAA A AA G C CAUUAA G G UU UGG G CA CCAAAUCA-3'@LB@ UA UUUUUGU GAUA GAC AUUGA CAUUG G GGCAAG CCA AUGAU GU CAC UUC UUAUC UUA AGU GCUU GU GCAG GGU AUGGUU GUGCU AUUUC AU CUCAUUUC@LB@ || |:||::| :|:| ||| ||||| ||||| | :||||| ||| ||:|| || ||| ||| |:||| |:| ||| |||| || |||: ||: |:::|: ||:|: ||:|| || |:||||||@LB@ AU AGAAGUA UUGU CUG UAACU GUAAC C UCGUUC GGU UAUUA CA GUG AAG AGUAG AGU UCA CGAA CA CGUU CCG UGUUAG CAUGG UAGAG UA GGGUAAAG@LB@3'-AUU...AAAAA G G C AGG G AA A ACA A A U UUACUUAC G A AGAA UU G AA AG AAACU...CAA-5'@LB@ | |@LB@ 179 33@LB@@LB@@LB@Energy -12.38 kcal/mol@LB@Hybridization Energy -71.0788 kcal/mol@LB@Unfolding Energy - mRNA 32.1142 kcal/mol@LB@Unfolding Energy - sRNA 31.2836 kcal/mol@LB@@LB@Position - mRNA 147 -- 292@LB@Position - sRNA 34 -- 178@LB@Position Seed - mRNA 286 -- 292@LB@Position Seed - sRNA 34 -- 40@LB@ |
| 191 |
0.008727 |
0.1751 |
bsu31280 |
yugU |
-11.72 |
0.152832 |
2 -- 31 |
120 -- 152 |
Evidence 4: Homologs of previously reported genes of unknown function |
|
_____________1___________________________________32\n_____________|___________________________________|\n__________5'-A_______AA__GA______________________CAUCA...GCG-3'\n______________AUAUUGA__CA__G_CCGCA_CAAG___CAUAUGA\n______________|:|||||__||__|_|||||_||||___|||||:|\n______________UGUAACU__GU__C_GGCGU_GUUC___GUAUAUU\n3'-AUU...UGUCC___________AA_A_____C____AAG_______ACAAC...CAA-5'\n_____________|___________________________________|\n_____________153_________________________________119\n |
25 -- 31 |
120 -- 126 |
-21.956 kcal/mol |
3.20784 kcal/mol |
9.17624 kcal/mol |
1 32@LB@ | |@LB@ 5'-A AA GA CAUCA...GCG-3'@LB@ AUAUUGA CA G CCGCA CAAG CAUAUGA@LB@ |:||||| || | ||||| |||| |||||:|@LB@ UGUAACU GU C GGCGU GUUC GUAUAUU@LB@3'-AUU...UGUCC AA A C AAG ACAAC...CAA-5'@LB@ | |@LB@ 153 119@LB@@LB@@LB@Energy -11.72 kcal/mol@LB@Hybridization Energy -21.956 kcal/mol@LB@Unfolding Energy - mRNA 3.20784 kcal/mol@LB@Unfolding Energy - sRNA 9.17624 kcal/mol@LB@@LB@Position - mRNA 2 -- 31@LB@Position - sRNA 120 -- 152@LB@Position Seed - mRNA 25 -- 31@LB@Position Seed - sRNA 120 -- 126@LB@ |
| 168 |
0.007777 |
0.1751 |
bsu32270 |
yutH |
-11.70 |
0.153975 |
226 -- 259 |
121 -- 158 |
endospore coat-associated protein YutH |
|
_____________225____________________________________260\n_____________|______________________________________|\n5'-UGC...AGAAA____C______C____CAG_______U___________CCAGC...ACU-3'\n______________AAUA_GGCAUU_ACAU_____GCAGC___UUCCAUGUA\n______________||:|_|:||||_||||_____|||||___||||||:||\n______________UUGU_CUGUAA_UGUA_____CGUCG___AAGGUAUAU\n3'-AUU...AGUAG____C______C____ACAGG_____UUC_________UACAA...CAA-5'\n_____________|______________________________________|\n_____________159____________________________________120\n |
253 -- 259 |
121 -- 127 |
-28.4364 kcal/mol |
6.47482 kcal/mol |
10.499 kcal/mol |
225 260@LB@ | |@LB@5'-UGC...AGAAA C C CAG U CCAGC...ACU-3'@LB@ AAUA GGCAUU ACAU GCAGC UUCCAUGUA@LB@ ||:| |:|||| |||| ||||| ||||||:||@LB@ UUGU CUGUAA UGUA CGUCG AAGGUAUAU@LB@3'-AUU...AGUAG C C ACAGG UUC UACAA...CAA-5'@LB@ | |@LB@ 159 120@LB@@LB@@LB@Energy -11.70 kcal/mol@LB@Hybridization Energy -28.4364 kcal/mol@LB@Unfolding Energy - mRNA 6.47482 kcal/mol@LB@Unfolding Energy - sRNA 10.499 kcal/mol@LB@@LB@Position - mRNA 226 -- 259@LB@Position - sRNA 121 -- 158@LB@Position Seed - mRNA 253 -- 259@LB@Position Seed - sRNA 121 -- 127@LB@ |
| 163 |
0.007546 |
0.1751 |
bsu03210 |
ycgN |
-11.47 |
0.170088 |
123 -- 268 |
12 -- 147 |
1-pyrroline-5-carboxylate dehydrogenase |
|
_____________122______________________________________________________269\n_____________|________________________________________________________|\n5'-CAA...CCUUA__________A___AU__A_AA______AAGAUCAAAACAACG_____________AAAAG...UAG-3'\n______________CAAACA__CG_GCC__UC_C__AUUUCC_______________UGGAAGCGUUUAA\n______________||||||__||_:||__||_|__|||:||_______________||:||:||:||||\n______________GUUUGU__GC_UGG__AG_G__UAAGGG_______________ACUUUUGCGAAUU\n3'-AUU...GAACC______UA__A___GU__A_AA______GUAAAGAAACUUUAA_____________AAAGA...CAA-5'\n_____________|________________________________________________________|\n_____________148______________________________________________________11\n |
262 -- 268 |
12 -- 18 |
-30.9991 kcal/mol |
6.38057 kcal/mol |
15.527 kcal/mol |
122 269@LB@ | |@LB@5'-CAA...CCUUA A AU A AA AAGAUCAAAACAACG AAAAG...UAG-3'@LB@ CAAACA CG GCC UC C AUUUCC UGGAAGCGUUUAA@LB@ |||||| || :|| || | |||:|| ||:||:||:||||@LB@ GUUUGU GC UGG AG G UAAGGG ACUUUUGCGAAUU@LB@3'-AUU...GAACC UA A GU A AA GUAAAGAAACUUUAA AAAGA...CAA-5'@LB@ | |@LB@ 148 11@LB@@LB@@LB@Energy -11.47 kcal/mol@LB@Hybridization Energy -30.9991 kcal/mol@LB@Unfolding Energy - mRNA 6.38057 kcal/mol@LB@Unfolding Energy - sRNA 15.527 kcal/mol@LB@@LB@Position - mRNA 123 -- 268@LB@Position - sRNA 12 -- 147@LB@Position Seed - mRNA 262 -- 268@LB@Position Seed - sRNA 12 -- 18@LB@ |
| 170 |
0.007871 |
0.1751 |
bsu13520 |
ykrP |
-11.14 |
0.196181 |
76 -- 136 |
99 -- 167 |
membrane-bound acyltransferase YkrP |
|
_____________75____________137\n_____________|_____________|\n5'-GGA...CCGUC_____A_______CUAAC...AUC-3'\n______________ACUUU_CAUCGAC\n______________|||:|_||||:||\n______________UGAGA_GUAGUUG\n3'-AUU...AAAAA_____A_______UCCUG...CAA-5'\n_____________|_____________|\n_____________168___________98\n |
91 -- 97 |
156 -- 162 |
-12.1838 kcal/mol |
0.966795 kcal/mol |
1.40592 kcal/mol |
75 137@LB@ | |@LB@5'-GGA...CCGUC A CUAAC...AUC-3'@LB@ ACUUU CAUCGAC@LB@ |||:| ||||:||@LB@ UGAGA GUAGUUG@LB@3'-AUU...AAAAA A UCCUG...CAA-5'@LB@ | |@LB@ 168 98@LB@@LB@@LB@Energy -11.14 kcal/mol@LB@Hybridization Energy -12.1838 kcal/mol@LB@Unfolding Energy - mRNA 0.966795 kcal/mol@LB@Unfolding Energy - sRNA 1.40592 kcal/mol@LB@@LB@Position - mRNA 76 -- 136@LB@Position - sRNA 99 -- 167@LB@Position Seed - mRNA 91 -- 97@LB@Position Seed - sRNA 156 -- 162@LB@ |
| 186 |
0.00854 |
0.1751 |
bsu03320 |
nasB |
-11.11 |
0.199178 |
25 -- 36 |
33 -- 45 |
assimilatory nitrate reductase electron transfer subunit |
bsu03300 |
_____________24____________37\n_____________|_____________|\n5'-UUU...AUAAG_____________AGACC...UCA-3'\n______________AUUCCCC_UUUCU\n______________|||||||_|||||\n______________UAAGGGG_AAAGA\n3'-AUU...GAGAA_______U_____AACUU...CAA-5'\n_____________|_____________|\n_____________46____________32\n |
25 -- 31 |
39 -- 45 |
-15.5675 kcal/mol |
1.76448 kcal/mol |
4.94568 kcal/mol |
24 37@LB@ | |@LB@5'-UUU...AUAAG AGACC...UCA-3'@LB@ AUUCCCC UUUCU@LB@ ||||||| |||||@LB@ UAAGGGG AAAGA@LB@3'-AUU...GAGAA U AACUU...CAA-5'@LB@ | |@LB@ 46 32@LB@@LB@@LB@Energy -11.11 kcal/mol@LB@Hybridization Energy -15.5675 kcal/mol@LB@Unfolding Energy - mRNA 1.76448 kcal/mol@LB@Unfolding Energy - sRNA 4.94568 kcal/mol@LB@@LB@Position - mRNA 25 -- 36@LB@Position - sRNA 33 -- 45@LB@Position Seed - mRNA 25 -- 31@LB@Position Seed - sRNA 39 -- 45@LB@ |
