| 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@ |
| 137 |
0.006339 |
0.1741 |
bsu39320 |
yxiB |
-11.20 |
0.191268 |
188 -- 222 |
111 -- 147 |
Evidence 4: Homologs of previously reported genes of unknown function |
|
_____________187_________________________223\n_____________|___________________________|\n5'-UAA...GUGUU______UGCAUA___A___________AUUCG...AAA-3'\n______________GCGGCA______GUG_AAUGUUGUUAC\n______________||:|||______:|:_||||||||:||\n______________CGUCGU______UAU_UUACAACAGUG\n3'-AUU...ACAGG______UCAAGG___A___________AAAGA...CAA-5'\n_____________|___________________________|\n_____________148_________________________110\n |
216 -- 222 |
111 -- 117 |
-23.3412 kcal/mol |
7.76229 kcal/mol |
5.28835 kcal/mol |
187 223@LB@ | |@LB@5'-UAA...GUGUU UGCAUA A AUUCG...AAA-3'@LB@ GCGGCA GUG AAUGUUGUUAC@LB@ ||:||| :|: ||||||||:||@LB@ CGUCGU UAU UUACAACAGUG@LB@3'-AUU...ACAGG UCAAGG A AAAGA...CAA-5'@LB@ | |@LB@ 148 110@LB@@LB@@LB@Energy -11.20 kcal/mol@LB@Hybridization Energy -23.3412 kcal/mol@LB@Unfolding Energy - mRNA 7.76229 kcal/mol@LB@Unfolding Energy - sRNA 5.28835 kcal/mol@LB@@LB@Position - mRNA 188 -- 222@LB@Position - sRNA 111 -- 147@LB@Position Seed - mRNA 216 -- 222@LB@Position Seed - sRNA 111 -- 117@LB@ |
| 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@ |
| 161 |
0.00741 |
0.1751 |
bsu24000 |
bmrU |
-16.51 |
0.015967 |
115 -- 144 |
156 -- 183 |
lipid kinase BmrU |
|
_____________114____________________________________145\n_____________|______________________________________|\n5'-GGA...AAUUA___________UC____AA_ACCUC_____________AUCUG...AUU-3'\n______________AAG_UCCAUGU__AAUG__G_____UC_CUUUUUCAUC\n______________|||_|||||:|__||||__|_____||_||||:|||||\n______________UUC_AGGUAUA__UUAC__C_____AG_GAAAGAGUAG\n3'-AUU...CGUCG___A_____________AA________U__________AAGUU...CAA-5'\n_____________|______________________________________|\n_____________184____________________________________155\n |
56 -- 62 |
102 -- 108 |
-19.6184 kcal/mol |
4.38872 kcal/mol |
6.78097 kcal/mol |
114 145@LB@ | |@LB@5'-GGA...AAUUA UC AA ACCUC AUCUG...AUU-3'@LB@ AAG UCCAUGU AAUG G UC CUUUUUCAUC@LB@ ||| |||||:| |||| | || ||||:|||||@LB@ UUC AGGUAUA UUAC C AG GAAAGAGUAG@LB@3'-AUU...CGUCG A AA U AAGUU...CAA-5'@LB@ | |@LB@ 184 155@LB@@LB@@LB@Energy -16.51 kcal/mol@LB@Hybridization Energy -19.6184 kcal/mol@LB@Unfolding Energy - mRNA 4.38872 kcal/mol@LB@Unfolding Energy - sRNA 6.78097 kcal/mol@LB@@LB@Position - mRNA 115 -- 144@LB@Position - sRNA 156 -- 183@LB@Position Seed - mRNA 56 -- 62@LB@Position Seed - sRNA 102 -- 108@LB@ |
| 192 |
0.00876 |
0.1751 |
bsu33520 |
csoR |
-16.67 |
0.014798 |
32 -- 56 |
39 -- 62 |
copper-sensing transcriptional repressor CsoR |
|
_____________31_________________________57\n_____________|__________________________|\n5'-CGG...ACCUU___________CU______C______UUUAA...GAG-3'\n______________GAUCGUAUCCA__UUUCUU__UCCCC\n______________:||||||:|||__|:||||__|||||\n______________UUAGCAUGGGU__AGAGAA__AGGGG\n3'-AUU...GUUUG___________________UA_____UAAAG...CAA-5'\n_____________|__________________________|\n_____________63_________________________38\n |
33 -- 39 |
55 -- 61 |
-27.3317 kcal/mol |
3.5392 kcal/mol |
9.04037 kcal/mol |
31 57@LB@ | |@LB@5'-CGG...ACCUU CU C UUUAA...GAG-3'@LB@ GAUCGUAUCCA UUUCUU UCCCC@LB@ :||||||:||| |:|||| |||||@LB@ UUAGCAUGGGU AGAGAA AGGGG@LB@3'-AUU...GUUUG UA UAAAG...CAA-5'@LB@ | |@LB@ 63 38@LB@@LB@@LB@Energy -16.67 kcal/mol@LB@Hybridization Energy -27.3317 kcal/mol@LB@Unfolding Energy - mRNA 3.5392 kcal/mol@LB@Unfolding Energy - sRNA 9.04037 kcal/mol@LB@@LB@Position - mRNA 32 -- 56@LB@Position - sRNA 39 -- 62@LB@Position Seed - mRNA 33 -- 39@LB@Position Seed - sRNA 55 -- 61@LB@ |
| 180 |
0.008222 |
0.1751 |
bsu14560 |
def |
-9.11 |
0.436669 |
135 -- 145 |
75 -- 85 |
peptide deformylase |
|
_____________134_________146\n_____________|___________|\n5'-UGG...CAUUC___________CCUUU...AGC-3'\n______________GUUUCGUUGCA\n______________|:|||||||||\n______________CGAAGCAACGU\n3'-AUU...CUUAC___________UAGAA...CAA-5'\n_____________|___________|\n_____________86__________74\n |
139 -- 145 |
75 -- 81 |
-16.022 kcal/mol |
4.21993 kcal/mol |
4.54464 kcal/mol |
134 146@LB@ | |@LB@5'-UGG...CAUUC CCUUU...AGC-3'@LB@ GUUUCGUUGCA@LB@ |:|||||||||@LB@ CGAAGCAACGU@LB@3'-AUU...CUUAC UAGAA...CAA-5'@LB@ | |@LB@ 86 74@LB@@LB@@LB@Energy -9.11 kcal/mol@LB@Hybridization Energy -16.022 kcal/mol@LB@Unfolding Energy - mRNA 4.21993 kcal/mol@LB@Unfolding Energy - sRNA 4.54464 kcal/mol@LB@@LB@Position - mRNA 135 -- 145@LB@Position - sRNA 75 -- 85@LB@Position Seed - mRNA 139 -- 145@LB@Position Seed - sRNA 75 -- 81@LB@ |
| 188 |
0.008618 |
0.1751 |
bsu31720 |
degQ |
-9.47 |
0.382925 |
276 -- 300 |
147 -- 170 |
degradation enzyme regulation protein DegQ |
|
_____________275______________301\n_____________|________________|\n5'-GAA...AUUCA____GAAA________AAAGC...UUG-3'\n______________UUAC____CAUUAACA\n______________||||____|||:||||\n______________AAUG____GUAGUUGU\n3'-AUU...AAAAA____AGAA________CCUGU...CAA-5'\n_____________|________________|\n_____________171______________146\n |
285 -- 291 |
155 -- 161 |
-9.46814 kcal/mol |
0.995164 kcal/mol |
1.41808 kcal/mol |
275 301@LB@ | |@LB@5'-GAA...AUUCA GAAA AAAGC...UUG-3'@LB@ UUAC CAUUAACA@LB@ |||| |||:||||@LB@ AAUG GUAGUUGU@LB@3'-AUU...AAAAA AGAA CCUGU...CAA-5'@LB@ | |@LB@ 171 146@LB@@LB@@LB@Energy -9.47 kcal/mol@LB@Hybridization Energy -9.46814 kcal/mol@LB@Unfolding Energy - mRNA 0.995164 kcal/mol@LB@Unfolding Energy - sRNA 1.41808 kcal/mol@LB@@LB@Position - mRNA 276 -- 300@LB@Position - sRNA 147 -- 170@LB@Position Seed - mRNA 285 -- 291@LB@Position Seed - sRNA 155 -- 161@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@ |
| 198 |
0.009004 |
0.1751 |
bsu38400 |
epr |
-15.65 |
0.024309 |
91 -- 136 |
32 -- 78 |
minor extracellular protease epr |
|
_____________90________________________________________________137\n_____________|_________________________________________________|\n5'-UGU...AAAUC__________C_______C_C_______GAAAAAUU_____________ACUAU...AAG-3'\n______________UGC_AUUUUG_UAAACAA_C_UGCCCAU________UUUUCC__UUCUU\n______________|||_||:|||_:||||||_|_|:|||||________||::||__|||||\n______________ACG_UAGAAC_GUUUGUU_G_AUGGGUA________AAGGGG__AAGAA\n3'-AUU...AAGCA___U______C_______A_C_______GAGAAU________UA_____ACUUU...CAA-5'\n_____________|_________________________________________________|\n_____________79________________________________________________31\n |
111 -- 117 |
51 -- 57 |
-30.7525 kcal/mol |
4.20051 kcal/mol |
13.8985 kcal/mol |
90 137@LB@ | |@LB@5'-UGU...AAAUC C C C GAAAAAUU ACUAU...AAG-3'@LB@ UGC AUUUUG UAAACAA C UGCCCAU UUUUCC UUCUU@LB@ ||| ||:||| :|||||| | |:||||| ||::|| |||||@LB@ ACG UAGAAC GUUUGUU G AUGGGUA AAGGGG AAGAA@LB@3'-AUU...AAGCA U C A C GAGAAU UA ACUUU...CAA-5'@LB@ | |@LB@ 79 31@LB@@LB@@LB@Energy -15.65 kcal/mol@LB@Hybridization Energy -30.7525 kcal/mol@LB@Unfolding Energy - mRNA 4.20051 kcal/mol@LB@Unfolding Energy - sRNA 13.8985 kcal/mol@LB@@LB@Position - mRNA 91 -- 136@LB@Position - sRNA 32 -- 78@LB@Position Seed - mRNA 111 -- 117@LB@Position Seed - sRNA 51 -- 57@LB@ |
| 194 |
0.008808 |
0.1751 |
bsu16370 |
fliR |
-9.70 |
0.351361 |
227 -- 250 |
157 -- 179 |
flagellar biosynthetic protein FliR |
|
_____________226____________________________________251\n_____________|______________________________________|\n5'-UAU...CGACA____AA____CAGG________U________UAU____AAAAU...UGC-3'\n______________ACUC___AUC____AACA_GAC_UUGGCGUU___UCCG\n______________||||___|||____||||_|||_|||:|:||___||||\n______________UGAG___UAG____UUGU_CUG_AACUGUAA___AGGC\n3'-AUU...AAAAA____AAG___________C___U________C______GUCGU...CAA-5'\n_____________|______________________________________|\n_____________180____________________________________156\n |
69 -- 75 |
142 -- 148 |
-23.642 kcal/mol |
8.17018 kcal/mol |
7.49537 kcal/mol |
226 251@LB@ | |@LB@5'-UAU...CGACA AA CAGG U UAU AAAAU...UGC-3'@LB@ ACUC AUC AACA GAC UUGGCGUU UCCG@LB@ |||| ||| |||| ||| |||:|:|| ||||@LB@ UGAG UAG UUGU CUG AACUGUAA AGGC@LB@3'-AUU...AAAAA AAG C U C GUCGU...CAA-5'@LB@ | |@LB@ 180 156@LB@@LB@@LB@Energy -9.70 kcal/mol@LB@Hybridization Energy -23.642 kcal/mol@LB@Unfolding Energy - mRNA 8.17018 kcal/mol@LB@Unfolding Energy - sRNA 7.49537 kcal/mol@LB@@LB@Position - mRNA 227 -- 250@LB@Position - sRNA 157 -- 179@LB@Position Seed - mRNA 69 -- 75@LB@Position Seed - sRNA 142 -- 148@LB@ |
