| 90 |
0.003471 |
0.1486 |
bsu35950 |
rbsC |
-15.06 |
0.032267 |
242 -- 293 |
40 -- 84 |
ribose transport system permease RbsC |
|
_____________241______________________________________294\n_____________|________________________________________|\n5'-CAA...AUUCA_____AC_G____AU______AAC________________GUUUA...UCA-3'\n______________CUUCG__G_AGUC___GCAAA___UCG_GCCCGUUUCUUG\n______________|||||__|_|:||___|||||___|||_:|||:|:||||:\n______________GAAGC__C_UUAG___CGUUU___AGC_UGGGUAGAGAAU\n3'-AUU...UUACC_____AA_G____AAC_____GUU___A____________AAGGG...CAA-5'\n_____________|________________________________________|\n_____________85_______________________________________39\n |
273 -- 279 |
45 -- 51 |
-33.8346 kcal/mol |
9.61657 kcal/mol |
8.57091 kcal/mol |
241 294@LB@ | |@LB@5'-CAA...AUUCA AC G AU AAC GUUUA...UCA-3'@LB@ CUUCG G AGUC GCAAA UCG GCCCGUUUCUUG@LB@ ||||| | |:|| ||||| ||| :|||:|:||||:@LB@ GAAGC C UUAG CGUUU AGC UGGGUAGAGAAU@LB@3'-AUU...UUACC AA G AAC GUU A AAGGG...CAA-5'@LB@ | |@LB@ 85 39@LB@@LB@@LB@Energy -15.06 kcal/mol@LB@Hybridization Energy -33.8346 kcal/mol@LB@Unfolding Energy - mRNA 9.61657 kcal/mol@LB@Unfolding Energy - sRNA 8.57091 kcal/mol@LB@@LB@Position - mRNA 242 -- 293@LB@Position - sRNA 40 -- 84@LB@Position Seed - mRNA 273 -- 279@LB@Position Seed - sRNA 45 -- 51@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@ |
| 174 |
0.008073 |
0.1751 |
bsu36350 |
ywpD |
-6.29 |
0.883503 |
121 -- 192 |
80 -- 160 |
'Evidence 3: Function proposed based on presence of conserved amino acid motif structural feature or limited homology; PubMedId: 16740923; Product type prc : receptor' |
|
_____________120___________________________________193\n_____________|_____________________________________|\n5'-GAC...UCGUU______AAA_______________CGGU_____G___UGAAG...GAG-3'\n______________UCAACA___GCGU____AUUGUCC____GCAAG__CC\n______________||||||___:|:|____|||||||____|||||__||\n______________AGUUGU___UGUA____UAACAGG____CGUUC__GG\n3'-AUU...GAAGU______CC_____ACUG_______CGU______AA__UAUAU...CAA-5'\n_____________|_____________________________________|\n_____________161___________________________________79\n |
134 -- 140 |
138 -- 144 |
-24.1445 kcal/mol |
6.42035 kcal/mol |
10.3237 kcal/mol |
120 193@LB@ | |@LB@5'-GAC...UCGUU AAA CGGU G UGAAG...GAG-3'@LB@ UCAACA GCGU AUUGUCC GCAAG CC@LB@ |||||| :|:| ||||||| ||||| ||@LB@ AGUUGU UGUA UAACAGG CGUUC GG@LB@3'-AUU...GAAGU CC ACUG CGU AA UAUAU...CAA-5'@LB@ | |@LB@ 161 79@LB@@LB@@LB@Energy -6.29 kcal/mol@LB@Hybridization Energy -24.1445 kcal/mol@LB@Unfolding Energy - mRNA 6.42035 kcal/mol@LB@Unfolding Energy - sRNA 10.3237 kcal/mol@LB@@LB@Position - mRNA 121 -- 192@LB@Position - sRNA 80 -- 160@LB@Position Seed - mRNA 134 -- 140@LB@Position Seed - sRNA 138 -- 144@LB@ |
| 126 |
0.005872 |
0.1741 |
bsu36510 |
amtB |
-10.53 |
0.253946 |
51 -- 89 |
33 -- 57 |
ammonium transporter NrgA |
|
_____________50_____________________________________________________________________________________90\n_____________|______________________________________________________________________________________|\n______5'-CUCAU______A_____UUUUAUAGAUACAA______AUAUC____AAAA____AU____C_______UUCCAUCCCUCGAUAA_______CAAAA...GCA-3'\n______________AUGAAU_GUUUC______________AGUCUU_____GCAA____UGCC__UCUC___UUCCU________________CAUUUCU\n______________||||||_|:|||______________|:||||_____:|||____|:||__||||___||||:________________|||||||\n______________UACUUA_CGAAG______________UUAGAA_____UGUU____AUGG__AGAG___AAGGG________________GUAAAGA\n3'-AUU...UUCAU______C_____CAACG_______________CCGUU____AGC_____GU____AAU____________________________AACUU...CAA-5'\n_____________|______________________________________________________________________________________|\n_____________58_____________________________________________________________________________________32\n |
83 -- 89 |
33 -- 39 |
-30.7855 kcal/mol |
7.29289 kcal/mol |
15.7787 kcal/mol |
50 90@LB@ | |@LB@ 5'-CUCAU A UUUUAUAGAUACAA AUAUC AAAA AU C UUCCAUCCCUCGAUAA CAAAA...GCA-3'@LB@ AUGAAU GUUUC AGUCUU GCAA UGCC UCUC UUCCU CAUUUCU@LB@ |||||| |:||| |:|||| :||| |:|| |||| ||||: |||||||@LB@ UACUUA CGAAG UUAGAA UGUU AUGG AGAG AAGGG GUAAAGA@LB@3'-AUU...UUCAU C CAACG CCGUU AGC GU AAU AACUU...CAA-5'@LB@ | |@LB@ 58 32@LB@@LB@@LB@Energy -10.53 kcal/mol@LB@Hybridization Energy -30.7855 kcal/mol@LB@Unfolding Energy - mRNA 7.29289 kcal/mol@LB@Unfolding Energy - sRNA 15.7787 kcal/mol@LB@@LB@Position - mRNA 51 -- 89@LB@Position - sRNA 33 -- 57@LB@Position Seed - mRNA 83 -- 89@LB@Position Seed - sRNA 33 -- 39@LB@ |
| 77 |
0.002638 |
0.1315 |
bsu36790 |
ywmA |
-11.30 |
0.183092 |
1 -- 48 |
33 -- 81 |
Evidence 5: No homology to any previously reported sequences |
|
_____________0_______________49\n_____________|_______________|\n5'-CGA...GUUCA_______________AUAUA...GAC-3'\n______________UACCC_UUUCUUAUU\n______________|||||_|:|||||||\n______________AUGGG_AGAGAAUAA\n3'-AUU...UUAGC_____U_________GGGGU...CAA-5'\n_____________|_______________|\n_____________82______________32\n |
65 -- 71 |
43 -- 49 |
-14.8917 kcal/mol |
3.00255 kcal/mol |
4.80466 kcal/mol |
0 49@LB@ | |@LB@5'-CGA...GUUCA AUAUA...GAC-3'@LB@ UACCC UUUCUUAUU@LB@ ||||| |:|||||||@LB@ AUGGG AGAGAAUAA@LB@3'-AUU...UUAGC U GGGGU...CAA-5'@LB@ | |@LB@ 82 32@LB@@LB@@LB@Energy -11.30 kcal/mol@LB@Hybridization Energy -14.8917 kcal/mol@LB@Unfolding Energy - mRNA 3.00255 kcal/mol@LB@Unfolding Energy - sRNA 4.80466 kcal/mol@LB@@LB@Position - mRNA 1 -- 48@LB@Position - sRNA 33 -- 81@LB@Position Seed - mRNA 65 -- 71@LB@Position Seed - sRNA 43 -- 49@LB@ |
| 71 |
0.002326 |
0.1242 |
bsu37230 |
ywjA |
-17.78 |
0.008577 |
195 -- 260 |
99 -- 147 |
ABC transporter ATP-binding protein |
|
_____________194___________________________________________________________261\n_____________|_____________________________________________________________|\n5'-UGA...GGGAA____GG__G_________U__UUUUCAUAUUAUAAA________AAC______________GACUU...UUC-3'\n______________GAUA__GU_CUGCGGCAA_UU_______________CCAUAUAA___GUUGUU_CUUUCUC\n______________||:|__||_|:||:||||_||_______________||||||||___|||||:_|||||||\n______________CUGU__CA_GGCGUCGUU_AA_______________GGUAUAUU___CAACAG_GAAAGAG\n3'-AUU...UGUAA____AA____________C_________________________A________U_______UAGAA...CAA-5'\n_____________|_____________________________________________________________|\n_____________148___________________________________________________________98\n |
248 -- 254 |
105 -- 111 |
-39.3136 kcal/mol |
10.514 kcal/mol |
13.0974 kcal/mol |
194 261@LB@ | |@LB@5'-UGA...GGGAA GG G U UUUUCAUAUUAUAAA AAC GACUU...UUC-3'@LB@ GAUA GU CUGCGGCAA UU CCAUAUAA GUUGUU CUUUCUC@LB@ ||:| || |:||:|||| || |||||||| |||||: |||||||@LB@ CUGU CA GGCGUCGUU AA GGUAUAUU CAACAG GAAAGAG@LB@3'-AUU...UGUAA AA C A U UAGAA...CAA-5'@LB@ | |@LB@ 148 98@LB@@LB@@LB@Energy -17.78 kcal/mol@LB@Hybridization Energy -39.3136 kcal/mol@LB@Unfolding Energy - mRNA 10.514 kcal/mol@LB@Unfolding Energy - sRNA 13.0974 kcal/mol@LB@@LB@Position - mRNA 195 -- 260@LB@Position - sRNA 99 -- 147@LB@Position Seed - mRNA 248 -- 254@LB@Position Seed - sRNA 105 -- 111@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@ |
| 78 |
0.002646 |
0.1315 |
bsu37410 |
albE |
-16.69 |
0.014616 |
33 -- 81 |
32 -- 77 |
antilisterial bacteriocin subtilosin biosynthesis protein AlbE |
|
_____________32_________________________________________________82\n_____________|__________________________________________________|\n5'-CUU...AUGGA_______CU_____AU____GU_______G__UUGUC______UA_____AGCCA...AAA-3'\n______________GCGGUUU___CAAA__AUCG__CUUAUCU_UU_____UUCCCC__UUCUU\n______________||::|:|___||||__||||__|::||||_||_____||||||__|||||\n______________CGUUAGA___GUUU__UAGC__GGGUAGA_AA_____AAGGGG__AAGAA\n3'-AUU...AGCAA_______ACC____GU____AU_______G__U__________UA_____ACUUU...CAA-5'\n_____________|__________________________________________________|\n_____________78_________________________________________________31\n |
54 -- 60 |
49 -- 55 |
-34.8992 kcal/mol |
7.30498 kcal/mol |
13.8943 kcal/mol |
32 82@LB@ | |@LB@5'-CUU...AUGGA CU AU GU G UUGUC UA AGCCA...AAA-3'@LB@ GCGGUUU CAAA AUCG CUUAUCU UU UUCCCC UUCUU@LB@ ||::|:| |||| |||| |::|||| || |||||| |||||@LB@ CGUUAGA GUUU UAGC GGGUAGA AA AAGGGG AAGAA@LB@3'-AUU...AGCAA ACC GU AU G U UA ACUUU...CAA-5'@LB@ | |@LB@ 78 31@LB@@LB@@LB@Energy -16.69 kcal/mol@LB@Hybridization Energy -34.8992 kcal/mol@LB@Unfolding Energy - mRNA 7.30498 kcal/mol@LB@Unfolding Energy - sRNA 13.8943 kcal/mol@LB@@LB@Position - mRNA 33 -- 81@LB@Position - sRNA 32 -- 77@LB@Position Seed - mRNA 54 -- 60@LB@Position Seed - sRNA 49 -- 55@LB@ |
| 28 |
0.0008121 |
0.1059 |
bsu37450 |
ywhK |
-15.95 |
0.020994 |
89 -- 155 |
41 -- 105 |
Evidence 1a: Function experimentally demonstrated in the studied strain; PubMedId: 12073041; Product type f: factor |
bsu37440 |
_____________88_______________________________________156\n_____________|________________________________________|\n5'-UAU...CCUCA_______GUA_______ACA__U_____U____A______GUUAU...UUC-3'\n______________GCAAUUU___CAAGCAA___CG_UACCC_UC_C_UAUUCU\n______________|||||:|___|||:|||___||_|||||_||_|_|||||:\n______________CGUUAGA___GUUUGUU___GC_AUGGG_AG_G_AUAAGG\n3'-AUU...AGCAA_______ACC_______A__________U__A_A______GGUAA...CAA-5'\n_____________|________________________________________|\n_____________106______________________________________40\n |
127 -- 133 |
61 -- 67 |
-28.9674 kcal/mol |
4.84834 kcal/mol |
9.64723 kcal/mol |
88 156@LB@ | |@LB@5'-UAU...CCUCA GUA ACA U U A GUUAU...UUC-3'@LB@ GCAAUUU CAAGCAA CG UACCC UC C UAUUCU@LB@ |||||:| |||:||| || ||||| || | |||||:@LB@ CGUUAGA GUUUGUU GC AUGGG AG G AUAAGG@LB@3'-AUU...AGCAA ACC A U A A GGUAA...CAA-5'@LB@ | |@LB@ 106 40@LB@@LB@@LB@Energy -15.95 kcal/mol@LB@Hybridization Energy -28.9674 kcal/mol@LB@Unfolding Energy - mRNA 4.84834 kcal/mol@LB@Unfolding Energy - sRNA 9.64723 kcal/mol@LB@@LB@Position - mRNA 89 -- 155@LB@Position - sRNA 41 -- 105@LB@Position Seed - mRNA 127 -- 133@LB@Position Seed - sRNA 61 -- 67@LB@ |
| 131 |
0.006003 |
0.1741 |
bsu37510 |
pbpG |
-10.90 |
0.216982 |
70 -- 106 |
84 -- 108 |
penicillin-binding protein 2D |
|
_____________69____________________________________107\n_____________|_____________________________________|\n5'-UGU...UGAAA___________CCUAAGGAAA_____UAGA_______GGGGA...UGU-3'\n______________UCUCAUUUUCA__________AAGUA____GGAUGGC\n______________||||||:||||__________|||||____|:|||||\n______________AGAGUAGAAGU__________UUCAU____CUUACCG\n3'-AUU...GUGAA__________________________UA_________AAGCA...CAA-5'\n_____________|_____________________________________|\n_____________109___________________________________83\n |
100 -- 106 |
84 -- 90 |
-24.2284 kcal/mol |
7.40636 kcal/mol |
9.09036 kcal/mol |
69 107@LB@ | |@LB@5'-UGU...UGAAA CCUAAGGAAA UAGA GGGGA...UGU-3'@LB@ UCUCAUUUUCA AAGUA GGAUGGC@LB@ ||||||:|||| ||||| |:|||||@LB@ AGAGUAGAAGU UUCAU CUUACCG@LB@3'-AUU...GUGAA UA AAGCA...CAA-5'@LB@ | |@LB@ 109 83@LB@@LB@@LB@Energy -10.90 kcal/mol@LB@Hybridization Energy -24.2284 kcal/mol@LB@Unfolding Energy - mRNA 7.40636 kcal/mol@LB@Unfolding Energy - sRNA 9.09036 kcal/mol@LB@@LB@Position - mRNA 70 -- 106@LB@Position - sRNA 84 -- 108@LB@Position Seed - mRNA 100 -- 106@LB@Position Seed - sRNA 84 -- 90@LB@ |
