| 102 |
0.004212 |
0.1594 |
bsu10510 |
yhjH |
-17.94 |
0.007893 |
238 -- 265 |
152 -- 183 |
MarR family transcriptional regulator |
|
_____________237________________266\n_____________|__________________|\n5'-GCA...GCGGA____A_____________GAAAU...CUG-3'\n______________GCUC_UUCAUCAGCAGGA\n______________:|||_|||||||:|||||\n______________UGAG_AAGUAGUUGUCCU\n3'-AUU...AAAAA__________________GUAAC...CAA-5'\n_____________|__________________|\n_____________184________________151\n |
259 -- 265 |
152 -- 158 |
-25.8948 kcal/mol |
5.0064 kcal/mol |
6.06644 kcal/mol |
237 266@LB@ | |@LB@5'-GCA...GCGGA A GAAAU...CUG-3'@LB@ GCUC UUCAUCAGCAGGA@LB@ :||| |||||||:|||||@LB@ UGAG AAGUAGUUGUCCU@LB@3'-AUU...AAAAA GUAAC...CAA-5'@LB@ | |@LB@ 184 151@LB@@LB@@LB@Energy -17.94 kcal/mol@LB@Hybridization Energy -25.8948 kcal/mol@LB@Unfolding Energy - mRNA 5.0064 kcal/mol@LB@Unfolding Energy - sRNA 6.06644 kcal/mol@LB@@LB@Position - mRNA 238 -- 265@LB@Position - sRNA 152 -- 183@LB@Position Seed - mRNA 259 -- 265@LB@Position Seed - sRNA 152 -- 158@LB@ |
| 103 |
0.004238 |
0.1594 |
bsu09690 |
nhaX |
-18.33 |
0.006526 |
38 -- 80 |
34 -- 77 |
stress response protein NhaX |
|
_____________37________________________________________________81\n_____________|_________________________________________________|\n5'-GGU...AACAC____AUUC_______U____________________CCA____G_____AUCUU...CCG-3'\n______________GCAA____CUUGGCA_AGCAA____ACCC_UC_CUU___UUCU_AUUUC\n______________||||____|||||||_|:|||____||||_||_|||___|:|:_|||||\n______________CGUU____GAACCGU_UUGUU____UGGG_AG_GAA___AGGG_UAAAG\n3'-AUU...AGCAA____A________________AGCA____U__A___UA_____G_____AAACU...CAA-5'\n_____________|_________________________________________________|\n_____________78________________________________________________33\n |
46 -- 52 |
66 -- 72 |
-32.0538 kcal/mol |
3.14542 kcal/mol |
13.7939 kcal/mol |
37 81@LB@ | |@LB@5'-GGU...AACAC AUUC U CCA G AUCUU...CCG-3'@LB@ GCAA CUUGGCA AGCAA ACCC UC CUU UUCU AUUUC@LB@ |||| ||||||| |:||| |||| || ||| |:|: |||||@LB@ CGUU GAACCGU UUGUU UGGG AG GAA AGGG UAAAG@LB@3'-AUU...AGCAA A AGCA U A UA G AAACU...CAA-5'@LB@ | |@LB@ 78 33@LB@@LB@@LB@Energy -18.33 kcal/mol@LB@Hybridization Energy -32.0538 kcal/mol@LB@Unfolding Energy - mRNA 3.14542 kcal/mol@LB@Unfolding Energy - sRNA 13.7939 kcal/mol@LB@@LB@Position - mRNA 38 -- 80@LB@Position - sRNA 34 -- 77@LB@Position Seed - mRNA 46 -- 52@LB@Position Seed - sRNA 66 -- 72@LB@ |
| 105 |
0.004352 |
0.1606 |
bsu05340 |
ydfA |
-10.81 |
0.225539 |
212 -- 245 |
38 -- 75 |
arsenic pump protein |
|
_____________211____________________________246\n_____________|______________________________|\n5'-AGC...UCAAU______________________________UAUUA...GAG-3'\n______________GAUUUUGGCA_______GUAUUCAUCUUUU\n______________:||:||||||_______|||::|||||:||\n______________UUAGAACCGU_______CAUGGGUAGAGAA\n3'-AUU...CAACG__________UUGUUAG_____________UAAGG...CAA-5'\n_____________|______________________________|\n_____________76_____________________________37\n |
227 -- 233 |
47 -- 53 |
-24.4224 kcal/mol |
4.10196 kcal/mol |
8.49986 kcal/mol |
211 246@LB@ | |@LB@5'-AGC...UCAAU UAUUA...GAG-3'@LB@ GAUUUUGGCA GUAUUCAUCUUUU@LB@ :||:|||||| |||::|||||:||@LB@ UUAGAACCGU CAUGGGUAGAGAA@LB@3'-AUU...CAACG UUGUUAG UAAGG...CAA-5'@LB@ | |@LB@ 76 37@LB@@LB@@LB@Energy -10.81 kcal/mol@LB@Hybridization Energy -24.4224 kcal/mol@LB@Unfolding Energy - mRNA 4.10196 kcal/mol@LB@Unfolding Energy - sRNA 8.49986 kcal/mol@LB@@LB@Position - mRNA 212 -- 245@LB@Position - sRNA 38 -- 75@LB@Position Seed - mRNA 227 -- 233@LB@Position Seed - sRNA 47 -- 53@LB@ |
| 106 |
0.004415 |
0.1614 |
bsu10790 |
asnO |
-17.17 |
0.011578 |
3 -- 52 |
32 -- 73 |
asparagine synthetase 3 |
|
_____________2__________________________________________________53\n_____________|__________________________________________________|\n_________5'-CC___GUAUAU_________U________AUCCAUGCUG_____UU______CAUUC...CUG-3'\n______________UCU______AACAAUUGU_UCCGUUUC__________UCUCC__UUUCUU\n______________|||______||||||:||_:||:|:||__________||:||__||||||\n______________AGA______UUGUUAGCA_GGGUAGAG__________AGGGG__AAAGAA\n3'-AUU...ACGUU___ACCGU__________U________AAUA___________U_______ACUUU...CAA-5'\n_____________|__________________________________________________|\n_____________74_________________________________________________31\n |
23 -- 29 |
48 -- 54 |
-28.5385 kcal/mol |
1.12136 kcal/mol |
12.9474 kcal/mol |
2 53@LB@ | |@LB@ 5'-CC GUAUAU U AUCCAUGCUG UU CAUUC...CUG-3'@LB@ UCU AACAAUUGU UCCGUUUC UCUCC UUUCUU@LB@ ||| ||||||:|| :||:|:|| ||:|| ||||||@LB@ AGA UUGUUAGCA GGGUAGAG AGGGG AAAGAA@LB@3'-AUU...ACGUU ACCGU U AAUA U ACUUU...CAA-5'@LB@ | |@LB@ 74 31@LB@@LB@@LB@Energy -17.17 kcal/mol@LB@Hybridization Energy -28.5385 kcal/mol@LB@Unfolding Energy - mRNA 1.12136 kcal/mol@LB@Unfolding Energy - sRNA 12.9474 kcal/mol@LB@@LB@Position - mRNA 3 -- 52@LB@Position - sRNA 32 -- 73@LB@Position Seed - mRNA 23 -- 29@LB@Position Seed - sRNA 48 -- 54@LB@ |
| 107 |
0.004539 |
0.1633 |
bsu11020 |
yitK |
-8.14 |
0.595243 |
151 -- 171 |
155 -- 171 |
nucleotide binding property based on structural studies of Haemophilus influenzae crystallized protein in PDB Accession Number 1IN0 and NMR studies of Escherichia coli YajQ; the YajQ protein from Pseudomonas synringae appears to play a role in activation of bateriophage phi6 segment L transcription |
|
_____________150___________________172\n_____________|_____________________|\n5'-ACC...UUCUC________ACUAUA_______CAUAA...AUG-3'\n______________UUUAUUCU______AUCAACA\n______________||||:|||______|||||||\n______________AAAUGAGA______UAGUUGU\n3'-AUU...AAAAA________AG___________CCUGU...CAA-5'\n_____________|_____________________|\n_____________172___________________154\n |
165 -- 171 |
155 -- 161 |
-10.3591 kcal/mol |
1.70839 kcal/mol |
1.4241 kcal/mol |
150 172@LB@ | |@LB@5'-ACC...UUCUC ACUAUA CAUAA...AUG-3'@LB@ UUUAUUCU AUCAACA@LB@ ||||:||| |||||||@LB@ AAAUGAGA UAGUUGU@LB@3'-AUU...AAAAA AG CCUGU...CAA-5'@LB@ | |@LB@ 172 154@LB@@LB@@LB@Energy -8.14 kcal/mol@LB@Hybridization Energy -10.3591 kcal/mol@LB@Unfolding Energy - mRNA 1.70839 kcal/mol@LB@Unfolding Energy - sRNA 1.4241 kcal/mol@LB@@LB@Position - mRNA 151 -- 171@LB@Position - sRNA 155 -- 171@LB@Position Seed - mRNA 165 -- 171@LB@Position Seed - sRNA 155 -- 161@LB@ |
| 108 |
0.004583 |
0.1633 |
bsu07910 |
yfkF |
-13.96 |
0.054522 |
60 -- 82 |
157 -- 179 |
MFS transporter |
|
_____________59______________83\n_____________|_______________|\n5'-GGC...UUAUU_______________AAACC...CAA-3'\n______________UUUAUUCUUCA_CAA\n______________||||:||||||_|||\n______________AAAUGAGAAGU_GUU\n3'-AUU...AAAAA___________A___GUCCU...CAA-5'\n_____________|_______________|\n_____________180_____________156\n |
73 -- 79 |
161 -- 167 |
-12.117 kcal/mol |
0.967911 kcal/mol |
1.36352 kcal/mol |
59 83@LB@ | |@LB@5'-GGC...UUAUU AAACC...CAA-3'@LB@ UUUAUUCUUCA CAA@LB@ ||||:|||||| |||@LB@ AAAUGAGAAGU GUU@LB@3'-AUU...AAAAA A GUCCU...CAA-5'@LB@ | |@LB@ 180 156@LB@@LB@@LB@Energy -13.96 kcal/mol@LB@Hybridization Energy -12.117 kcal/mol@LB@Unfolding Energy - mRNA 0.967911 kcal/mol@LB@Unfolding Energy - sRNA 1.36352 kcal/mol@LB@@LB@Position - mRNA 60 -- 82@LB@Position - sRNA 157 -- 179@LB@Position Seed - mRNA 73 -- 79@LB@Position Seed - sRNA 161 -- 167@LB@ |
| 110 |
0.004746 |
0.1671 |
bsu09940 |
yhaL |
-13.90 |
0.056226 |
141 -- 159 |
37 -- 56 |
sporulation protein YhaL |
|
_____________140______________________________________160\n_____________|________________________________________|\n5'-GAA...UUUUU____________GUA___U____U___A_GCA________AGCGC...ACC-3'\n______________UCCGUGGUGGGU___UCU_UGUA_UGU_G___UCAUUUUC\n______________||||::|:::||___||:_|:||_|||_|___|||:||||\n______________AGGCGUCGUUCA___AGG_AUAU_ACA_C___AGUGAAAG\n3'-AUU...GUAAC__________________U____U___A____________AGUAG...CAA-5'\n_____________|________________________________________|\n_____________57_______________________________________36\n |
245 -- 251 |
107 -- 113 |
-27.9954 kcal/mol |
7.44184 kcal/mol |
9.97721 kcal/mol |
140 160@LB@ | |@LB@5'-GAA...UUUUU GUA U U A GCA AGCGC...ACC-3'@LB@ UCCGUGGUGGGU UCU UGUA UGU G UCAUUUUC@LB@ ||||::|:::|| ||: |:|| ||| | |||:||||@LB@ AGGCGUCGUUCA AGG AUAU ACA C AGUGAAAG@LB@3'-AUU...GUAAC U U A AGUAG...CAA-5'@LB@ | |@LB@ 57 36@LB@@LB@@LB@Energy -13.90 kcal/mol@LB@Hybridization Energy -27.9954 kcal/mol@LB@Unfolding Energy - mRNA 7.44184 kcal/mol@LB@Unfolding Energy - sRNA 9.97721 kcal/mol@LB@@LB@Position - mRNA 141 -- 159@LB@Position - sRNA 37 -- 56@LB@Position Seed - mRNA 245 -- 251@LB@Position Seed - sRNA 107 -- 113@LB@ |
| 111 |
0.004819 |
0.1671 |
bsu32120 |
yuzG |
-7.22 |
0.752372 |
165 -- 182 |
149 -- 166 |
Evidence 5: No homology to any previously reported sequences |
|
_____________164______________________________________183\n_____________|________________________________________|\n5'-UAG...UCUUU_____A_G_ACA__G__AAG__A________GAUG_____AAACG...UGG-3'\n______________AUGGC_U_G___UG_GA____G_GCGAAUAA____GCCCA\n______________|||||_|_|___||_:|____|_||:||:||____:||||\n______________UACCG_A_C___AC_UU____C_CGUUUGUU____UGGGU\n3'-AUU...UUACU_____A_G_A____G__AGAA__________AGCA_____AGAGA...CAA-5'\n_____________|________________________________________|\n_____________167______________________________________148\n |
192 -- 198 |
62 -- 68 |
-24.2214 kcal/mol |
8.24153 kcal/mol |
10.1588 kcal/mol |
164 183@LB@ | |@LB@5'-UAG...UCUUU A G ACA G AAG A GAUG AAACG...UGG-3'@LB@ AUGGC U G UG GA G GCGAAUAA GCCCA@LB@ ||||| | | || :| | ||:||:|| :||||@LB@ UACCG A C AC UU C CGUUUGUU UGGGU@LB@3'-AUU...UUACU A G A G AGAA AGCA AGAGA...CAA-5'@LB@ | |@LB@ 167 148@LB@@LB@@LB@Energy -7.22 kcal/mol@LB@Hybridization Energy -24.2214 kcal/mol@LB@Unfolding Energy - mRNA 8.24153 kcal/mol@LB@Unfolding Energy - sRNA 10.1588 kcal/mol@LB@@LB@Position - mRNA 165 -- 182@LB@Position - sRNA 149 -- 166@LB@Position Seed - mRNA 192 -- 198@LB@Position Seed - sRNA 62 -- 68@LB@ |
| 113 |
0.005141 |
0.1741 |
bsu36080 |
ywrF |
-10.09 |
0.302867 |
265 -- 274 |
38 -- 47 |
Evidence 4: Homologs of previously reported genes of unknown function |
|
_____________264________275\n_____________|__________|\n5'-UGG...UACCG__________CCCCA...UUU-3'\n______________UUAUUCCCCG\n______________|||||||||:\n______________AAUAAGGGGU\n3'-AUU...UAGAG__________AAAGA...CAA-5'\n_____________|__________|\n_____________48_________37\n |
268 -- 274 |
38 -- 44 |
-13.6226 kcal/mol |
1.45475 kcal/mol |
3.86656 kcal/mol |
264 275@LB@ | |@LB@5'-UGG...UACCG CCCCA...UUU-3'@LB@ UUAUUCCCCG@LB@ |||||||||:@LB@ AAUAAGGGGU@LB@3'-AUU...UAGAG AAAGA...CAA-5'@LB@ | |@LB@ 48 37@LB@@LB@@LB@Energy -10.09 kcal/mol@LB@Hybridization Energy -13.6226 kcal/mol@LB@Unfolding Energy - mRNA 1.45475 kcal/mol@LB@Unfolding Energy - sRNA 3.86656 kcal/mol@LB@@LB@Position - mRNA 265 -- 274@LB@Position - sRNA 38 -- 47@LB@Position Seed - mRNA 268 -- 274@LB@Position Seed - sRNA 38 -- 44@LB@ |
| 114 |
0.005219 |
0.1741 |
bsu18630 |
exlX |
-14.36 |
0.045196 |
231 -- 263 |
38 -- 88 |
expansin-YoaJ |
|
_____________230________________________________________________________264\n_____________|__________________________________________________________|\n5'-GGG...AGAUC_______CA_______GUA________UU________U____________________CAAGC...GUU-3'\n______________AUGAGUG__UUUGUUG___UGGUUUUG___GACGAUC___UCUGUUUU____UCCCCG\n______________||||:||__||:||||___:::|:|||___:||:|||___:|::|:|:____|||||:\n______________UACUUAC__AAGCAAC___GUUAGAAC___UUGUUAG___GGGUAGAG____AGGGGU\n3'-AUU...UUCAU_______CG__________________CGU_______CAU________AAUA______AAAGA...CAA-5'\n_____________|__________________________________________________________|\n_____________89_________________________________________________________37\n |
242 -- 248 |
59 -- 65 |
-36.6264 kcal/mol |
9.40493 kcal/mol |
14.3562 kcal/mol |
230 264@LB@ | |@LB@5'-GGG...AGAUC CA GUA UU U CAAGC...GUU-3'@LB@ AUGAGUG UUUGUUG UGGUUUUG GACGAUC UCUGUUUU UCCCCG@LB@ ||||:|| ||:|||| :::|:||| :||:||| :|::|:|: |||||:@LB@ UACUUAC AAGCAAC GUUAGAAC UUGUUAG GGGUAGAG AGGGGU@LB@3'-AUU...UUCAU CG CGU CAU AAUA AAAGA...CAA-5'@LB@ | |@LB@ 89 37@LB@@LB@@LB@Energy -14.36 kcal/mol@LB@Hybridization Energy -36.6264 kcal/mol@LB@Unfolding Energy - mRNA 9.40493 kcal/mol@LB@Unfolding Energy - sRNA 14.3562 kcal/mol@LB@@LB@Position - mRNA 231 -- 263@LB@Position - sRNA 38 -- 88@LB@Position Seed - mRNA 242 -- 248@LB@Position Seed - sRNA 59 -- 65@LB@ |
