| 112 |
0.00483 |
0.1671 |
bsu26010 |
yqbQ |
-18.75 |
0.005285 |
180 -- 239 |
82 -- 139 |
Evidence 4: Homologs of previously reported genes of unknown function |
bsu12700 |
_____________179______________________________________________________________240\n_____________|________________________________________________________________|\n5'-CUA...AAAUA_______________G______ACA__AUAGA___________A______AAACG_________GAGCU...UUA-3'\n______________CCGCAGUAAG___CA_GUGAUG___UG_____AC_UUUUCGUC_UUAAAG_____GAAUGGCUU\n______________||||||:|||___||_:|:|||___||_____||_||:||:||_|:||||_____|||||||||\n______________GGCGUCGUUC___GU_UAUUAC___AC_____UG_AAGAGUAG_AGUUUC_____CUUACCGAA\n3'-AUU...UAACA__________AAG__A______A____AG_____A________A______AUUA__________GCAAC...CAA-5'\n_____________|________________________________________________________________|\n_____________140______________________________________________________________81\n |
233 -- 239 |
82 -- 88 |
-46.2512 kcal/mol |
11.9879 kcal/mol |
18.3017 kcal/mol |
179 240@LB@ | |@LB@5'-CUA...AAAUA G ACA AUAGA A AAACG GAGCU...UUA-3'@LB@ CCGCAGUAAG CA GUGAUG UG AC UUUUCGUC UUAAAG GAAUGGCUU@LB@ ||||||:||| || :|:||| || || ||:||:|| |:|||| |||||||||@LB@ GGCGUCGUUC GU UAUUAC AC UG AAGAGUAG AGUUUC CUUACCGAA@LB@3'-AUU...UAACA AAG A A AG A A AUUA GCAAC...CAA-5'@LB@ | |@LB@ 140 81@LB@@LB@@LB@Energy -18.75 kcal/mol@LB@Hybridization Energy -46.2512 kcal/mol@LB@Unfolding Energy - mRNA 11.9879 kcal/mol@LB@Unfolding Energy - sRNA 18.3017 kcal/mol@LB@@LB@Position - mRNA 180 -- 239@LB@Position - sRNA 82 -- 139@LB@Position Seed - mRNA 233 -- 239@LB@Position Seed - sRNA 82 -- 88@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@ |
| 146 |
0.00677 |
0.1741 |
bsu29690 |
acuA |
-9.85 |
0.331997 |
126 -- 137 |
14 -- 25 |
acetoin utilization protein AcuA |
|
_____________125____________138\n_____________|______________|\n5'-UAU...AUUCA______________UUUUA...AUG-3'\n______________UAUUCUUC_UCAAU\n______________||:|||||_||||:\n______________AUGAGAAG_AGUUG\n3'-AUU...AAAAA________U_____UCCUG...CAA-5'\n_____________|______________|\n_____________26_____________13\n |
95 -- 101 |
162 -- 168 |
-12.3213 kcal/mol |
1.49895 kcal/mol |
1.40683 kcal/mol |
125 138@LB@ | |@LB@5'-UAU...AUUCA UUUUA...AUG-3'@LB@ UAUUCUUC UCAAU@LB@ ||:||||| ||||:@LB@ AUGAGAAG AGUUG@LB@3'-AUU...AAAAA U UCCUG...CAA-5'@LB@ | |@LB@ 26 13@LB@@LB@@LB@Energy -9.85 kcal/mol@LB@Hybridization Energy -12.3213 kcal/mol@LB@Unfolding Energy - mRNA 1.49895 kcal/mol@LB@Unfolding Energy - sRNA 1.40683 kcal/mol@LB@@LB@Position - mRNA 126 -- 137@LB@Position - sRNA 14 -- 25@LB@Position Seed - mRNA 95 -- 101@LB@Position Seed - sRNA 162 -- 168@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@ |
| 122 |
0.005613 |
0.1741 |
bsu19770 |
cgeC |
-14.56 |
0.041162 |
73 -- 119 |
6 -- 59 |
spore maturation protein CgeC |
|
_____________72_______________________________________________________120\n_____________|________________________________________________________|\n5'-CAC...AACGC_______G____AUUU___A_______AAG__________________________AAUGG...AAG-3'\n______________CGUACCU_AUCU____UUC_UCUAUUU___________GAAAAUGCU_GAUUUUUU\n______________||||||:_||||____|||_:|:||||___________|||||:|||_:||||:||\n______________GCAUGGG_UAGA____AAG_GGGUAAA___________CUUUUGCGA_UUAAAGAA\n3'-AUU...UGUUA____________GAAU___________GAAACUUUAAA_________A________AACAA-5'\n_____________|________________________________________________________|\n_____________60_______________________________________________________5\n |
105 -- 111 |
15 -- 21 |
-32.5895 kcal/mol |
8.55003 kcal/mol |
11.8347 kcal/mol |
72 120@LB@ | |@LB@5'-CAC...AACGC G AUUU A AAG AAUGG...AAG-3'@LB@ CGUACCU AUCU UUC UCUAUUU GAAAAUGCU GAUUUUUU@LB@ ||||||: |||| ||| :|:|||| |||||:||| :||||:||@LB@ GCAUGGG UAGA AAG GGGUAAA CUUUUGCGA UUAAAGAA@LB@3'-AUU...UGUUA GAAU GAAACUUUAAA A AACAA-5'@LB@ | |@LB@ 60 5@LB@@LB@@LB@Energy -14.56 kcal/mol@LB@Hybridization Energy -32.5895 kcal/mol@LB@Unfolding Energy - mRNA 8.55003 kcal/mol@LB@Unfolding Energy - sRNA 11.8347 kcal/mol@LB@@LB@Position - mRNA 73 -- 119@LB@Position - sRNA 6 -- 59@LB@Position Seed - mRNA 105 -- 111@LB@Position Seed - sRNA 15 -- 21@LB@ |
| 124 |
0.005654 |
0.1741 |
bsu24680 |
comGF |
-17.71 |
0.008856 |
105 -- 249 |
40 -- 187 |
ComG operon protein 6 |
|
_____________104_____________________________________250\n_____________|_______________________________________|\n5'-UGU...UUUUG______A_______A_________GUU__A_A_______AAUGG...UAG-3'\n______________UC_UCG_CAGCAGG_ACA_UGACG___UC_C_CAGCAGG\n______________||_||:_||:||||_|||_||||:___||_|_|||||:|\n______________AG_AGU_GUUGUCC_UGU_ACUGU___AG_G_GUCGUUC\n3'-AUU...AAAUG__A___A___________A_____AAC____C_______AAGGU...CAA-5'\n_____________|_______________________________________|\n_____________188_____________________________________39\n |
276 -- 282 |
130 -- 136 |
-32.8645 kcal/mol |
8.22307 kcal/mol |
10.1234 kcal/mol |
104 250@LB@ | |@LB@5'-UGU...UUUUG A A GUU A A AAUGG...UAG-3'@LB@ UC UCG CAGCAGG ACA UGACG UC C CAGCAGG@LB@ || ||: ||:|||| ||| ||||: || | |||||:|@LB@ AG AGU GUUGUCC UGU ACUGU AG G GUCGUUC@LB@3'-AUU...AAAUG A A A AAC C AAGGU...CAA-5'@LB@ | |@LB@ 188 39@LB@@LB@@LB@Energy -17.71 kcal/mol@LB@Hybridization Energy -32.8645 kcal/mol@LB@Unfolding Energy - mRNA 8.22307 kcal/mol@LB@Unfolding Energy - sRNA 10.1234 kcal/mol@LB@@LB@Position - mRNA 105 -- 249@LB@Position - sRNA 40 -- 187@LB@Position Seed - mRNA 276 -- 282@LB@Position Seed - sRNA 130 -- 136@LB@ |
| 150 |
0.006829 |
0.1741 |
bsu17970 |
cotM |
-16.22 |
0.018442 |
252 -- 285 |
70 -- 101 |
spore coat protein M |
|
_____________251______________________286\n_____________|________________________|\n5'-AUG...GUAUG________________________UUGAA...UCG-3'\n______________GAUGAAUGGCUUCG__GCAAUUUU\n______________:|||||||||||||__|||||:||\n______________UUACUUACCGAAGC__CGUUAGAA\n3'-AUU...UUUCA______________AA________CCGUU...CAA-5'\n_____________|________________________|\n_____________102______________________69\n |
278 -- 284 |
71 -- 77 |
-28.716 kcal/mol |
7.78723 kcal/mol |
6.67697 kcal/mol |
251 286@LB@ | |@LB@5'-AUG...GUAUG UUGAA...UCG-3'@LB@ GAUGAAUGGCUUCG GCAAUUUU@LB@ :||||||||||||| |||||:||@LB@ UUACUUACCGAAGC CGUUAGAA@LB@3'-AUU...UUUCA AA CCGUU...CAA-5'@LB@ | |@LB@ 102 69@LB@@LB@@LB@Energy -16.22 kcal/mol@LB@Hybridization Energy -28.716 kcal/mol@LB@Unfolding Energy - mRNA 7.78723 kcal/mol@LB@Unfolding Energy - sRNA 6.67697 kcal/mol@LB@@LB@Position - mRNA 252 -- 285@LB@Position - sRNA 70 -- 101@LB@Position Seed - mRNA 278 -- 284@LB@Position Seed - sRNA 71 -- 77@LB@ |
| 120 |
0.005453 |
0.1741 |
bsu38750 |
cydB |
-16.17 |
0.018868 |
36 -- 121 |
37 -- 136 |
cytochrome d ubiquinol oxidase subunit 2 |
|
_____________35____________________________________________________________________________________________________________122\n_____________|_____________________________________________________________________________________________________________|\n5'-AAU...CGUAA___________________________C__AA_____GCA_____U______UAC___AU__________________________________U________A_____GAGAU...CCC-3'\n______________CAGCGGGUUCC________UUGUUAUU_UC__UCAUC___UUCGG_GUGAUG___AUG____________UCUUGGU__GCA__C_UGCUUGUC_UCUUGUUU_UCCGU\n______________||||::|||||________||||:|:|_||__|||||___|||::_||:|||___|||____________||||||:__:||__|_|:|:::||_||||:||:_:||:|\n______________GUCGUUCAAGG________AACAGUGA_AG__AGUAG___AAGUU_CAUUAC___UAC____________AGAACCG__UGU__G_AUGGGUAG_AGAAUAAG_GGGUA\n3'-AUU...CAGGC___________UAUAUUAC________A_________________U______U_____CGAAGCAACGUU_______UU___UA_C_______________________AAGAA...CAA-5'\n_____________|_____________________________________________________________________________________________________________|\n_____________137___________________________________________________________________________________________________________36\n |
109 -- 115 |
42 -- 48 |
-60.5971 kcal/mol |
23.6183 kcal/mol |
24.7809 kcal/mol |
35 122@LB@ | |@LB@5'-AAU...CGUAA C AA GCA U UAC AU U A GAGAU...CCC-3'@LB@ CAGCGGGUUCC UUGUUAUU UC UCAUC UUCGG GUGAUG AUG UCUUGGU GCA C UGCUUGUC UCUUGUUU UCCGU@LB@ ||||::||||| ||||:|:| || ||||| |||:: ||:||| ||| ||||||: :|| | |:|:::|| ||||:||: :||:|@LB@ GUCGUUCAAGG AACAGUGA AG AGUAG AAGUU CAUUAC UAC AGAACCG UGU G AUGGGUAG AGAAUAAG GGGUA@LB@3'-AUU...CAGGC UAUAUUAC A U U CGAAGCAACGUU UU UA C AAGAA...CAA-5'@LB@ | |@LB@ 137 36@LB@@LB@@LB@Energy -16.17 kcal/mol@LB@Hybridization Energy -60.5971 kcal/mol@LB@Unfolding Energy - mRNA 23.6183 kcal/mol@LB@Unfolding Energy - sRNA 24.7809 kcal/mol@LB@@LB@Position - mRNA 36 -- 121@LB@Position - sRNA 37 -- 136@LB@Position Seed - mRNA 109 -- 115@LB@Position Seed - sRNA 42 -- 48@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@ |
| 121 |
0.005491 |
0.1741 |
bsu40190 |
fbp |
-16.50 |
0.016068 |
67 -- 83 |
53 -- 69 |
fructose-1 6-bisphosphatase |
|
_____________66________________84\n_____________|_________________|\n5'-AAA...AAUGA___________U_____UAAAC...GCA-3'\n______________GGCAAACAAUC_UACCC\n______________|||||||||||_|||||\n______________CCGUUUGUUAG_AUGGG\n3'-AUU...UAGAA___________C_____UAGAG...CAA-5'\n_____________|_________________|\n_____________70________________52\n |
71 -- 77 |
59 -- 65 |
-25.6398 kcal/mol |
2.55798 kcal/mol |
7.79863 kcal/mol |
66 84@LB@ | |@LB@5'-AAA...AAUGA U UAAAC...GCA-3'@LB@ GGCAAACAAUC UACCC@LB@ ||||||||||| |||||@LB@ CCGUUUGUUAG AUGGG@LB@3'-AUU...UAGAA C UAGAG...CAA-5'@LB@ | |@LB@ 70 52@LB@@LB@@LB@Energy -16.50 kcal/mol@LB@Hybridization Energy -25.6398 kcal/mol@LB@Unfolding Energy - mRNA 2.55798 kcal/mol@LB@Unfolding Energy - sRNA 7.79863 kcal/mol@LB@@LB@Position - mRNA 67 -- 83@LB@Position - sRNA 53 -- 69@LB@Position Seed - mRNA 71 -- 77@LB@Position Seed - sRNA 59 -- 65@LB@ |
