| 107 |
0.009163 |
0.2778 |
bsu12780 |
xepA |
-15.86 |
0.020153 |
79 -- 99 |
29 -- 48 |
phage-like element PBSX protein XepA |
|
_____________78____________________100\n_____________|_____________________|\n5'-UUG...UCAAU__AG_______C______U__GAACA...UUU-3'\n______________UC__GAUCUGG_AGAGGG_GU\n______________||__||||||:_||||||_||\n______________AG__CUAGACU_UCUCCC_CA\n3'-UUU...AGCCU__AA_______A_________ACCCC...AUA-5'\n_____________|_____________________|\n_____________49____________________28\n |
83 -- 89 |
38 -- 44 |
-22.9588 kcal/mol |
6.12286 kcal/mol |
0.974361 kcal/mol |
78 100@LB@ | |@LB@5'-UUG...UCAAU AG C U GAACA...UUU-3'@LB@ UC GAUCUGG AGAGGG GU@LB@ || ||||||: |||||| ||@LB@ AG CUAGACU UCUCCC CA@LB@3'-UUU...AGCCU AA A ACCCC...AUA-5'@LB@ | |@LB@ 49 28@LB@@LB@@LB@Energy -15.86 kcal/mol@LB@Hybridization Energy -22.9588 kcal/mol@LB@Unfolding Energy - mRNA 6.12286 kcal/mol@LB@Unfolding Energy - sRNA 0.974361 kcal/mol@LB@@LB@Position - mRNA 79 -- 99@LB@Position - sRNA 29 -- 48@LB@Position Seed - mRNA 83 -- 89@LB@Position Seed - sRNA 38 -- 44@LB@ |
| 128 |
0.01143 |
0.2883 |
bsu29690 |
acuA |
-15.81 |
0.020690 |
248 -- 269 |
30 -- 52 |
acetoin utilization protein AcuA |
|
_____________247_____________________270\n_____________|_______________________|\n5'-UAU...GCAAC___C____UA_________A___CCUGU...AUG-3'\n______________CGG_UCUU___CUGAUAGA_GGG\n______________|||_||||___||||||||_|||\n______________GCC_AGAA___GACUAUCU_CCC\n3'-UUU...AAAAA___U____CUA________C___AACCC...AUA-5'\n_____________|_______________________|\n_____________53______________________29\n |
259 -- 265 |
34 -- 40 |
-22.8929 kcal/mol |
6.10629 kcal/mol |
0.979974 kcal/mol |
247 270@LB@ | |@LB@5'-UAU...GCAAC C UA A CCUGU...AUG-3'@LB@ CGG UCUU CUGAUAGA GGG@LB@ ||| |||| |||||||| |||@LB@ GCC AGAA GACUAUCU CCC@LB@3'-UUU...AAAAA U CUA C AACCC...AUA-5'@LB@ | |@LB@ 53 29@LB@@LB@@LB@Energy -15.81 kcal/mol@LB@Hybridization Energy -22.8929 kcal/mol@LB@Unfolding Energy - mRNA 6.10629 kcal/mol@LB@Unfolding Energy - sRNA 0.979974 kcal/mol@LB@@LB@Position - mRNA 248 -- 269@LB@Position - sRNA 30 -- 52@LB@Position Seed - mRNA 259 -- 265@LB@Position Seed - sRNA 34 -- 40@LB@ |
| 109 |
0.009307 |
0.2778 |
bsu07880 |
yfkJ |
-15.70 |
0.021808 |
288 -- 299 |
30 -- 51 |
low molecular weight protein-tyrosine-phosphatase YfkJ |
|
_____________287____________________300\n_____________|______________________|\n5'-GGU...AAAAA______________________A-3'\n______________GGAU__________UAGAGGGG\n______________||||__________||||||||\n______________CCUA__________AUCUCCCC\n3'-UUU...AAAAG____GAACUAGACU________AACCC...AUA-5'\n_____________|______________________|\n_____________52_____________________29\n |
293 -- 299 |
30 -- 36 |
-17.0834 kcal/mol |
0.412933 kcal/mol |
0.974282 kcal/mol |
287 300@LB@ | |@LB@5'-GGU...AAAAA A-3'@LB@ GGAU UAGAGGGG@LB@ |||| ||||||||@LB@ CCUA AUCUCCCC@LB@3'-UUU...AAAAG GAACUAGACU AACCC...AUA-5'@LB@ | |@LB@ 52 29@LB@@LB@@LB@Energy -15.70 kcal/mol@LB@Hybridization Energy -17.0834 kcal/mol@LB@Unfolding Energy - mRNA 0.412933 kcal/mol@LB@Unfolding Energy - sRNA 0.974282 kcal/mol@LB@@LB@Position - mRNA 288 -- 299@LB@Position - sRNA 30 -- 51@LB@Position Seed - mRNA 293 -- 299@LB@Position Seed - sRNA 30 -- 36@LB@ |
| 123 |
0.01093 |
0.2883 |
bsu22970 |
ypbH |
-15.60 |
0.022809 |
254 -- 275 |
27 -- 45 |
adapter protein MecA |
|
_____________253____________________276\n_____________|______________________|\n5'-GAG...CUCGA________C___CC____A___ACAAA...ACU-3'\n______________UGAUUUGA_AGA__GGGG_UUG\n______________||||:|||_|||__||||_|||\n______________ACUAGACU_UCU__CCCC_AAC\n3'-UUU...CUAGA________A_____________CCCUU...AUA-5'\n_____________|______________________|\n_____________46_____________________26\n |
255 -- 261 |
38 -- 44 |
-20.0369 kcal/mol |
3.46393 kcal/mol |
0.971562 kcal/mol |
253 276@LB@ | |@LB@5'-GAG...CUCGA C CC A ACAAA...ACU-3'@LB@ UGAUUUGA AGA GGGG UUG@LB@ ||||:||| ||| |||| |||@LB@ ACUAGACU UCU CCCC AAC@LB@3'-UUU...CUAGA A CCCUU...AUA-5'@LB@ | |@LB@ 46 26@LB@@LB@@LB@Energy -15.60 kcal/mol@LB@Hybridization Energy -20.0369 kcal/mol@LB@Unfolding Energy - mRNA 3.46393 kcal/mol@LB@Unfolding Energy - sRNA 0.971562 kcal/mol@LB@@LB@Position - mRNA 254 -- 275@LB@Position - sRNA 27 -- 45@LB@Position Seed - mRNA 255 -- 261@LB@Position Seed - sRNA 38 -- 44@LB@ |
| 17 |
0.0003284 |
0.06216 |
bsu08690 |
ygaD |
-15.59 |
0.022949 |
198 -- 218 |
30 -- 49 |
ABC transporter ATP-binding protein |
|
_____________197___________________219\n_____________|_____________________|\n5'-UGA...CACAC___A____AAA__G_______GAAUC...UCG-3'\n______________AUC_UGAU___GA_AGAGGGG\n______________|||_||||___||_|||||||\n______________UAG_ACUA___CU_UCUCCCC\n3'-UUU...AAGCC___A____GA___A_______AACCC...AUA-5'\n_____________|_____________________|\n_____________50____________________29\n |
212 -- 218 |
30 -- 36 |
-19.3788 kcal/mol |
2.8161 kcal/mol |
0.974265 kcal/mol |
197 219@LB@ | |@LB@5'-UGA...CACAC A AAA G GAAUC...UCG-3'@LB@ AUC UGAU GA AGAGGGG@LB@ ||| |||| || |||||||@LB@ UAG ACUA CU UCUCCCC@LB@3'-UUU...AAGCC A GA A AACCC...AUA-5'@LB@ | |@LB@ 50 29@LB@@LB@@LB@Energy -15.59 kcal/mol@LB@Hybridization Energy -19.3788 kcal/mol@LB@Unfolding Energy - mRNA 2.8161 kcal/mol@LB@Unfolding Energy - sRNA 0.974265 kcal/mol@LB@@LB@Position - mRNA 198 -- 218@LB@Position - sRNA 30 -- 49@LB@Position Seed - mRNA 212 -- 218@LB@Position Seed - sRNA 30 -- 36@LB@ |
| 161 |
0.01452 |
0.3008 |
bsu04700 |
rsbU |
-15.42 |
0.024826 |
142 -- 163 |
16 -- 38 |
phosphoserine phosphatase RsbU |
|
_____________141_____________________164\n_____________|_______________________|\n5'-CUG...AUUCC____C____GAA___________UACAA...UCA-3'\n______________GUAG_GGGG____GGAACAGAGA\n______________:|||_||||____||||||||||\n______________UAUC_CCCC____CCUUGUCUCU\n3'-UUU...UAGAC____U____AACC__________CAUCG...AUA-5'\n_____________|_______________________|\n_____________39______________________15\n |
157 -- 163 |
16 -- 22 |
-28.36 kcal/mol |
3.46196 kcal/mol |
9.47701 kcal/mol |
141 164@LB@ | |@LB@5'-CUG...AUUCC C GAA UACAA...UCA-3'@LB@ GUAG GGGG GGAACAGAGA@LB@ :||| |||| ||||||||||@LB@ UAUC CCCC CCUUGUCUCU@LB@3'-UUU...UAGAC U AACC CAUCG...AUA-5'@LB@ | |@LB@ 39 15@LB@@LB@@LB@Energy -15.42 kcal/mol@LB@Hybridization Energy -28.36 kcal/mol@LB@Unfolding Energy - mRNA 3.46196 kcal/mol@LB@Unfolding Energy - sRNA 9.47701 kcal/mol@LB@@LB@Position - mRNA 142 -- 163@LB@Position - sRNA 16 -- 38@LB@Position Seed - mRNA 157 -- 163@LB@Position Seed - sRNA 16 -- 22@LB@ |
| 28 |
0.0009752 |
0.1113 |
bsu00830 |
ctsR |
-15.39 |
0.025224 |
189 -- 206 |
23 -- 36 |
transcriptional regulator CtsR |
|
_____________188________________207\n_____________|__________________|\n5'-UGG...GUAAA___G_______AGU____CAUAA...CAG-3'\n______________GGA_GGGGUUG___GGGA\n______________:||_|||||||___||||\n______________UCU_CCCCAAC___CCCU\n3'-UUU...GACUA__________________UGUCU...AUA-5'\n_____________|__________________|\n_____________37_________________22\n |
193 -- 199 |
27 -- 33 |
-19.308 kcal/mol |
3.78136 kcal/mol |
0.139628 kcal/mol |
188 207@LB@ | |@LB@5'-UGG...GUAAA G AGU CAUAA...CAG-3'@LB@ GGA GGGGUUG GGGA@LB@ :|| ||||||| ||||@LB@ UCU CCCCAAC CCCU@LB@3'-UUU...GACUA UGUCU...AUA-5'@LB@ | |@LB@ 37 22@LB@@LB@@LB@Energy -15.39 kcal/mol@LB@Hybridization Energy -19.308 kcal/mol@LB@Unfolding Energy - mRNA 3.78136 kcal/mol@LB@Unfolding Energy - sRNA 0.139628 kcal/mol@LB@@LB@Position - mRNA 189 -- 206@LB@Position - sRNA 23 -- 36@LB@Position Seed - mRNA 193 -- 199@LB@Position Seed - sRNA 27 -- 33@LB@ |
| 60 |
0.003464 |
0.1926 |
bsu03300 |
nasD |
-15.33 |
0.025906 |
190 -- 205 |
34 -- 52 |
nitrite reductase |
|
_____________189_________________206\n_____________|___________________|\n5'-UUU...AGGAG___________________AAAAA...CAA-3'\n______________CGGAUC___AUCUGAUGGG\n______________||||||___|||||||:|:\n______________GCCUAG___UAGACUAUCU\n3'-UUU...AAAAA______AAC__________CCCCA...AUA-5'\n_____________|___________________|\n_____________53__________________33\n |
199 -- 205 |
34 -- 40 |
-21.0079 kcal/mol |
4.70189 kcal/mol |
0.976339 kcal/mol |
189 206@LB@ | |@LB@5'-UUU...AGGAG AAAAA...CAA-3'@LB@ CGGAUC AUCUGAUGGG@LB@ |||||| |||||||:|:@LB@ GCCUAG UAGACUAUCU@LB@3'-UUU...AAAAA AAC CCCCA...AUA-5'@LB@ | |@LB@ 53 33@LB@@LB@@LB@Energy -15.33 kcal/mol@LB@Hybridization Energy -21.0079 kcal/mol@LB@Unfolding Energy - mRNA 4.70189 kcal/mol@LB@Unfolding Energy - sRNA 0.976339 kcal/mol@LB@@LB@Position - mRNA 190 -- 205@LB@Position - sRNA 34 -- 52@LB@Position Seed - mRNA 199 -- 205@LB@Position Seed - sRNA 34 -- 40@LB@ |
| 156 |
0.0141 |
0.3008 |
bsu23600 |
yqxK |
-15.33 |
0.025853 |
66 -- 91 |
32 -- 51 |
Evidence 4: Homologs of previously reported genes of unknown function |
|
_____________65_________________________92\n_____________|__________________________|\n5'-GAA...GAUGA___CGAGUU_G____AG_________UGACG...GAA-3'\n______________GGA______U_UUGA__UGAUGGAGG\n______________|||______|_||||__||||:||||\n______________CCU______A_AACU__ACUAUCUCC\n3'-UUU...AAAAG__________G____AG_________CCAAC...AUA-5'\n_____________|__________________________|\n_____________52_________________________31\n |
85 -- 91 |
32 -- 38 |
-19.9693 kcal/mol |
3.66503 kcal/mol |
0.97021 kcal/mol |
65 92@LB@ | |@LB@5'-GAA...GAUGA CGAGUU G AG UGACG...GAA-3'@LB@ GGA U UUGA UGAUGGAGG@LB@ ||| | |||| ||||:||||@LB@ CCU A AACU ACUAUCUCC@LB@3'-UUU...AAAAG G AG CCAAC...AUA-5'@LB@ | |@LB@ 52 31@LB@@LB@@LB@Energy -15.33 kcal/mol@LB@Hybridization Energy -19.9693 kcal/mol@LB@Unfolding Energy - mRNA 3.66503 kcal/mol@LB@Unfolding Energy - sRNA 0.97021 kcal/mol@LB@@LB@Position - mRNA 66 -- 91@LB@Position - sRNA 32 -- 51@LB@Position Seed - mRNA 85 -- 91@LB@Position Seed - sRNA 32 -- 38@LB@ |
| 112 |
0.009326 |
0.2778 |
bsu13200 |
rsbRB |
-15.32 |
0.026068 |
265 -- 282 |
32 -- 51 |
RsbT co-antagonist protein RsbRB |
bsu19450 |
_____________264__________________283\n_____________|____________________|\n5'-CUU...GGAAU_________AAC________AAAGU...CGC-3'\n______________GGAU__UGA___GAUGGAGG\n______________||||__|||___|||:||||\n______________CCUA__ACU___CUAUCUCC\n3'-UUU...AAAAG____GA___AGA________CCAAC...AUA-5'\n_____________|____________________|\n_____________52___________________31\n |
276 -- 282 |
32 -- 38 |
-18.0013 kcal/mol |
1.71479 kcal/mol |
0.97021 kcal/mol |
264 283@LB@ | |@LB@5'-CUU...GGAAU AAC AAAGU...CGC-3'@LB@ GGAU UGA GAUGGAGG@LB@ |||| ||| |||:||||@LB@ CCUA ACU CUAUCUCC@LB@3'-UUU...AAAAG GA AGA CCAAC...AUA-5'@LB@ | |@LB@ 52 31@LB@@LB@@LB@Energy -15.32 kcal/mol@LB@Hybridization Energy -18.0013 kcal/mol@LB@Unfolding Energy - mRNA 1.71479 kcal/mol@LB@Unfolding Energy - sRNA 0.97021 kcal/mol@LB@@LB@Position - mRNA 265 -- 282@LB@Position - sRNA 32 -- 51@LB@Position Seed - mRNA 276 -- 282@LB@Position Seed - sRNA 32 -- 38@LB@ |
