RpoA - Plos

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dnaA
dnaN
recF
yaaA
yaaB
gyrB
gyrA
guaB
dacA
pdxS
pdxT
serS
tadA
yaaC
dck dgk
abrB
30,000bp
40,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yabG
ispE
veg sspF
purR
yabJ spoVG
gcaD
prs
ctc
mfd
pth yabK
spoVT yabM
yabN
yabP divIC
yabO yabQ
yabR
spoIIE
yabS yabT
tilS
hprT ftsH
70,000bp
coaX hslO
yacD
cysK
pabB
pabC
pabA
sul
folK dusB
folB yazB
80,000bp
lysS
90,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
mcsB
clpC
radA
disA
yacL
ispD ispF gltX
cysE cysS
rlmB
secE nusG
rplK rplA
mrnC
yacP sigH rpmGB
rplJ rplLybxB
rpoB
rpoC
120,000bp
rpsL
rplGB rpsG fusA
130,000bp
tufA
ybaC
rplB
rplC
rpsJ
rplD rplW
rplR
rplV
rpsQ rplX rplE rpsH
rplO
rpsS rpsC rplPrpmC rplNA
rpsNA rplF
rpsErpmD secY
infA rpsM
adk mapA ybzGrpmJ rpsK rpoA
rplQ
140,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
yabE
5.00
110,000bp
RpoC-His
yabD
0.00
ctsR mcsA
RpoA-His
metS
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
yaaI
20,000bp
60,000bp
Experiment 1
tmk
yabB
yabC
yaaT yabA
yazA
5.00
ksgA
rnmV
Experiment 2
yaaO
yaaR
yaaQ holB
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
10,000bp
yaaH
dnaX
xpaC
csfB
yaaN
recR bofA
yaaK yaaL
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
1
rplQ
ybxA
ybaE ybaF truA
rplMrpsI
ybaJ
cwlD
ybaK
salA
kbaA
gerD
ybaR
ybaN
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
170,000bp
ybbF
ybbH murQ
190,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
adaA adaB
ndhF
ybcC
ybcI
ybcFybcH
ybcL
ybzH
skfB
ybcM skfA
skfC
skfE
skfF
skfG skfH ybdG
ybdJ ybdK
ybzI
ybdO
ybxG
ybdM ybdN
ybxH
csgA
cypC
ybxI
220,000bp
ybfA
ybeF
ybeC
ybyB
glpQ
ybfB
purT
glpT
ybfE ybfF
230,000bp
ybfG
ybfH
mpr
ybfJ ybfK
ybfM
pssA
psd ybfN ybfO
ybfI
240,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ybfP
ybfQ
ybgA ybgB ilvE
nagP
nagBB
glnJ
ybgF
ybgG
glnT
glnL
ycbC
ycbD
gudP
gudD
ycbG garD
ycbJ
ycbK
rtpA
ycbL ycbM
ycbN
glsA
phoD
cwlJ ycbR yczK
ycbO
ycbP
270,000bp
280,000bp
tatCD
tatAD
ycbU
pcp
ansZ
lmrB
lmrA
estA
yccF
yczC
natA natB
natK
natR
yccK
ycdA
290,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
ybbE
5.00
260,000bp
RpoA-His
ybbD
0.00
gltP
RpoC-His
ybbC
5.00
ybfO
RpoA-His
ybbB
ybbK
ybbJ
0.00
210,000bp
Experiment 1
feuA
180,000bp
alkA
Experiment 2
feuB
glmM
5.00
glmS
Experiment 1
sigW rsiW ybbP ybbR
ybbA feuC
160,000bp
Experiment 2
ybaS
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
2
ycdB
ycdC
ycdA
rapJ
ycdF ycdG
adcA
adcC adcB
cwlK
yceC yceDyceE yceF
yceG
yceH
yceI
yceB
yceJ
mdr
ycgI nadE
ycgH
aroK
tmrB
330,000bp
ycgK
cah
ycgL
ycgM
ycgN
ycgO
ycgP
ycgJ
ycgQ
340,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ycgS
nasA
nasF
nasD
nasE
nasC
folEB
yckD
yckC
bglC
yciC
yciB yczL
nasB
yckA yckB
hxlR
nin nucA tlpC
srfAA
srfAB
comS
srfAC
hxlB hxlA
370,000bp
380,000bp
390,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
srfAD ycxA
ycxD
ubiX ubiD
sfp
sfp
yczE
tcyC tcyB tcyA
yclA
yclD
bsdD yclE
yclG
dtpT
gerKA
yczF
gerKC
gerKB
yclJ yclK
rapC
phrC
yczN
yczM yclM
yclH yclI
420,000bp
430,000bp
yclN
yclO
yclP
yclQ
yczG
ycnB
ycnC
ycnD ycnE gabR
gabT
gabD
glcU
gdh
ycnL
ycnI ycnJ
mtlA
ycnK
440,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
amhX
ycgE ycgF ycgG
5.00
410,000bp
RpoA-His
lctP
0.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
ldh
5.00
ycxB ycxC
Experiment 1
ycgB amyE
0.00
360,000bp
Experiment 2
yceK
ycgA
5.00
ycgT
srfAC
opuAB opuAC
320,000bp
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
310,000bp
ycgQ ycgR
opuAA
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
3
mtlA
mtlF mtlD
ycsA
sipU
ycsD ycsE
yczH
ycsF ycsG
ycsI
kipI
kipA
kipR
lipC
yczO
yczI pbpC
ycsN
mtlR
ydaB
yczJ
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
ydaO
mutTydaP
ydbA
ydzK mntH
480,000bp
ydaT
ydaS
dctS
ydbD
dctR
dctB
490,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
ydbI
ydbJ
ydbK ydbL ydbM
ydbO
ddl
murF
cshA
ydbS ydbT
ydbP
acpS ydcC
alrA
ndoA
rsbT
endB rsbRA rsbS rsbU
rsbW
rsbV sigB
rsbX
ydcG
ydcF ydcH ydcI
ydcP
ydzL
sacV ydcO
ydcQ
ydcK
ydcA
ydcL
520,000bp
0.00
ydcR
ydcT yddB
ydcS yddA
yddD
yddC yddE
yddG
yddF
yddH
yddI yddJ
immR
immA
rapI
yddM
phrI
yddK
530,000bp
540,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yddQ
lrpB
yddR
yddS
yddT
ydzM
ydzN ydeA cspC
ydeD
ydeB
ydeC
ydzE
ydeF
ydeE
ydeG
ydeH ydeI
ydeL
ydeJ
ydeK
ydeM
ydeN ydzF
ydeO
aseR
ydeS ydzO ydfA
ydeQ
ydeP
570,000bp
ydeR
ydzS
ydzS ydfB
ydfD
ydfC
580,000bp
ydfF
ydfE
ydfH
ydfI
ydfJ
ydzP
ydfG ydzQ
ydfN ydfO
nap
ydfK ydfL
ydfM
ydfP ydfQ
ydzH
ydzR
590,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
ydaN
5.00
560,000bp
RpoA-His
ydaM
0.00
yddN
RpoC-His
ydaL
5.00
lrpA
RpoA-His
ydaK
ydzA
470,000bp
510,000bp
Experiment 1
ydaJ
0.00
ydbN
Experiment 2
lrpCtopB
5.00
dctR dctP
Experiment 1
ydaH
ydaC
460,000bp
Experiment 2
ydaD ydaEydaF ydaG
ydbC
gsiBydbB
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
4
ydfS
ydfR
ydzR
ydgD
ydgC
ydgE
ydgB
cotPydgA
ydgG ydgH
vmlR
ydgF
ydgK
dinB
ydhC ydhD
ydgI ydgJ
ydhE
ydhB
ydhF phoB
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
610,000bp
purK
pbuE
thiL
ydiB ydiC rimI gcp
ydhU ydhU
groES
ydiL
ydiK
ydiF
630,000bp
640,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
groEL
groES
ydzV
ydiM ydzU
ydiO
ydiP
ydiR
ydiS
ydjA
ydjB ydjC
ydzW ydzW
ydzW ydzW
ydzW ydzW ydzW
gutB
gutP
ydjE
pspA ydjG
ydjH ydjI
gutR
iolT
ydjJ
ydjM ydjN
yeaB
ydjO
ydzJ ydjP
bdhA
670,000bp
yeaA
cotA
gabP
yeaC
yeaD
yebA
guaA
pbuG
yebC
yebE
purE
yebD yebG
purK
ydzX
680,000bp
690,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
purB
purQ
purC purS purL
purF
purM
purN purH
purD
yecA
yerA
yezF
yerB
yerC
pcrB pcrA
ligA
yerH
gatA
gatC
yerI
yerD
gatB
sapB opuE
720,000bp
swrC
yerO
730,000bp
dagK
yefA
yefC yeeA
yeeB
yeeC
yeeG
yezA yeeF
yeeD yezG
yefB
740,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
gmuG
5.00
710,000bp
RpoC-His
gmuR gmuE gmuF
0.00
yezC
RpoA-His
gmuD
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
ydhH ydhI
ydhK
620,000bp
660,000bp
Experiment 1
ydhJ
tatCY
moaC rex tatAY
5.00
ydzT
ydzT ydzT
ydzTydzT
Experiment 2
ydhG
gmuA
gmuB gmuC
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5
yeeG rapH
yeeI
phrH
yesL
cotJB yesJ
yeeKyezE yesE yesF cotJA cotJC yesK
yesM
yesN
yesO
yesP
yesQ
yesR
yesS
rhgT yesU yesV yesW
yesX
yesY yesZ
yetA
lplA
lplB
lplC
lplD
yetJ
yetI yetI yezD yetK
yetF
yetG yetH
770,000bp
yfnG
yfkQ
790,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
yfnF
yfnE
yfnD
yfmT
yfmS
yfmR
yfmQyfmPyfmO
yfmN
yfnB yfnA
yfmL
yfmK
yfmM
yflT
yfmA pel
yfmG
yfmJ
yfmI
yfmF yfmE
yfmD
yfmC
0.00
yflS
citS
citT
yflP
citM
yflN
yfmB
nosA
yflK
yflL
820,000bp
830,000bp
yflB
yflD yflA
nagP
yflI
yflJ yflH mapB
yflE
yfkT
yfkR
yfkS
yfkQ
840,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
treA
treR
yfkO
yfkM
yfkN
yfkJ yfkI yfkH
yfkL
yfkK
yfkE
yfkF
yfkD
yfjT pdaA
yfkC
yfkA
yfjP
yfjR
yfjO
yfzA
dusC
yfjM yfjL
acoA
acoB
yfjQ
acoC
acoL
acoR
sspH
yfjF yfjE yfjD yfjC
870,000bp
880,000bp
malA
yfjB
malR malP
malQ
yfiC
catDcatE
yfiF
yfjA
890,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
yetN
0.00
860,000bp
RpoC-His
yfnG
5.00
treP
RpoA-His
yfnH
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
ltaSA
0.00
810,000bp
Experiment 1
yetO
5.00
yfnC
Experiment 2
yetL
780,000bp
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
760,000bp
yetM
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
6
yfiG
yfiH
yfiI
yfiJ
yfiK
yfiL
yfiM
yfiN
estB
yfiQ
padR
yfiT
yfiR yfiS
mprF
yfiU
yfiZ
yfiV
ygaFperR
yfhS
ygaE
930,000bp
gsaB
ygxA
ygzB
940,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
thiC
senS
ygzC
ygaK
ssuB ssuA
ssuC ssuD
ygaN rpsNB
yhbA
yhbB
cspRyhbD yhbE yhbF
prkA
yhbH
yhbIyhbJ yhcA
yhcG
yhcC yhcE
yhcB yhcD yhcF
yhcH
yhcI
yhcJ
ygzD
ygaO
yhzB
katA
cspB
970,000bp
tcyP
yhcK
yhcN yhcO
yhcM
980,000bp
yhcR
yhcS
yhcQ
yhcUyhcVyhcW yhcX
yhcT
990,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
glpP glpF
glpK
glpD
pgcA
yhcY
yhcZ yhdA
yhdC
spoVR
nsrR ygxB
lytE
phoA
citA
yhdF
ctrA
yhdH
yhdJ
citR
yhdI
1,020,000bp
yhdL
yhdK
yhdN
sigM
1,030,000bp
plsC
yhdR
yhdP
cueR
yhdY
yhdX
yhdT
yhdZ
yhdV
crcBA yhdW
yheI
yheJ
dat
yheN
nhaC
nhaX
yheH
yheG yheF
1,040,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
yfhP
fabL
0.00
1,010,000bp
RpoA-His
yfhQ
5.00
yhdB lytF
RpoC-His
yfhO
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
yhxA
yhzG
RpoA-His
csbB
sspK
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
yfhE
yfhD yfhF
920,000bp
960,000bp
Experiment 1
recX yfhH yfhI
0.00
spo0M
Experiment 2
yfhC
ygaB
sspE ygaC ygaD
5.00
ygzA ygaJ
Experiment 1
yfhB
yfiY
910,000bp
Experiment 2
yfhA
yfhK yfhM
yfhJ
yfhL
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
7
yheB
yheE
sspB yheD
yheA
yheC
yhaX
hemZ
yhaZ
yhaR
yhaU
khtT khtS
natA
natB
yhaO
yhaN
yhaM
yhzD
hemH hemY
yhgD yhgE
yhfC
yhgC
yhgB
yhfA
yhfE
fabHB
1,080,000bp
yhfF
gltT
yhfI
yhfJ
yhfH
1,090,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yhfK lcfB
yhfN
yhfO yhfP
yhfQ
aprE
yhxC
phoE yhfS
yhfT
bioY hemAT
yhfW
comK
yhzC
yhjA
yhxD
yhjE sipV yhjG
yhjB
yhjH
yhjC yhjD
yhjM
glcP
ntdC
ntdB
ntdA
1,120,000bp
yhjP
yhjN
yhjO
addB
addA
sbcD
sbcC
yisB
gerPE gerPC
gerPF gerPD gerPB
yhjQyhjR
1,130,000bp
1,140,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yisL wprA
asnO
yisN
yisP
yizA
yisR
yisQ
degA
yisS
yisV
yisT yisU
yisY
yisX
yitC yitD
yisZ yitA
yitB
yitQ
yizB
yitR nprB
yitL
yitE
yitF
yitG
1,170,000bp
yitH
yitI yitJ
yitK
1,180,000bp
yitM yitO
yitP
yitT
yitS
ipi
yitV
yitW yitY
yitZ
argC
argJ
argB argD
carA
yizC yitU
1,190,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
yhaA
hemE
0.00
1,160,000bp
RpoA-His
hinT
pbpF
5.00
gerPA yisJ
gerPB yisI
RpoC-His
scoC yhaH trpP serC
ecsC
0.00
yisK
RpoA-His
ecsA ecsB
1,070,000bp
1,110,000bp
Experiment 1
yhaJ
yhzF
5.00
yhfM
Experiment 2
yhaI
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
yhfJ
Experiment 1
yhzE
prsA
1,060,000bp
Experiment 2
yhaL
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
8
carA
carB
argF
yjzC yjaU
yjaV med
yjzD
comZ fabHA fabF
yjaZ
appD
appF
appA appA
appB
appC
yjbA
yjzB
oppA
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
pepF
yjbLyjbM ppnKA yjbO
yizD yjbH
yjbI yjbJ
yjbK
1,230,000bp
yjbQ
tenA tenI thiO
thiF
thiD
fabI
prpE
cotO
cotZ
1,240,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
yjcZ
yjcA yjzK spoVIF
yjzE
yjcD
metI
yjzF yjcO
yjcN yjzG
yjcP yjcQ yjcR yjcS yjdA
metC
yjcFyjcG yjcH
0.00
yjcK yjcL
yjcM
manR
manP
manA
yjdF
yjdB
yjdI
yjdG yjdH
yjeA
yjzH yjdJ
1,270,000bp
ctaO
cotT
yjfC
yjfA yjfB
yjgC
yjgD yjhA yjhB
yjiB
yjgA yjgB
1,280,000bp
yjiA
yjiC
yjjA
yjzI
yjlB
yjkA
yjkB
rex ndh
yjlA
1,290,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
uxaC
exuM
yjmC
yjmD
uxuA
uxuB
exuT
exuR
uxaB
uxaA
yjoB
yjoA
rapA
phrA xlyB
yjpA
xkdB
xkdD xpf
yjzJ
xkdC ykzK xtrA
yjqB yjqC
yjqA
xtmA xtmB
xkdE
xkdF
xkdG
xkdH xkdJ xkdK
ykzM
ykzL xkdI
xkdN xkdO
xkdM xkzB
xkdP xkdQ
xkdS
xkdR xkdT
xkdUxkzA xkdV
xkdX
xhlB
xkdW xepA xhlA xlyA
spoIISA
spoIISB pit
xkdA xre
1,320,000bp
1,330,000bp
1,340,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
mecA coiA
5.00
1,310,000bp
RpoC-His
yjbC spxA
0.00
yjnA
RpoA-His
yjbB
1,220,000bp
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
oppF
yjbE
1,260,000bp
Experiment 1
oppD
5.00
cotY cotX cotWcotV
ndh
oppC
trpS
1,210,000bp
Experiment 2
oppB
thiG
thiS
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
9
mhqA
pit
ykaA
ykcB
ykcC
proG
ykbA
dppA dppB
dppC
dppD
dppE
ykfA
ykfB
ykfC
ykgB
guaD metE
ispA
ykoG ykoH
thiX
1,380,000bp
thiW
ykoI
ykoJ ykzD mgtE
thiV thiU
ykzO
tnrA
ykoN
1,390,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ykoS
ykoT
ykoQ
ykoX ykoY
ykoU
ykoV
sigI
rsgI
htpX
ykzE
ykzP
ktrD
ykrK
sspD
ykoW
kinE
ogt
ykrP
mtnE
mtnA
mtnK
mtnW
mtnX mtnB mtnD
mtnU
eag
spo0E
ykvA
1,420,000bp
mhqR
kinD
ykvI
motB motA
queC queDqueE queF
clpE
1,430,000bp
ykvO
ykvP
ykvQ
ykzQ
ykzR
ykvN
ykvR ykzSykvT ykvU
ykvS
1,440,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
stoA zosA
ykvY
ykvZ
glcT
ptsG
ptsI
ptsH
splB
splA
mcpC
ykwC
pbpH
kinA
ykwD
cheV
patA
ykzT
fadH
ykyB ykuC
1,470,000bp
fadG
ykzU ykuH ykuI
ykuK
ykuL
ykuJ
ykzF ccpC
ykuN ykuO ykuP dapH dapL
ykuD ykuE
ykuS
ykuT
1,480,000bp
ykuUykuV
rok
mobA moeB
moeA
moaE
mobB moaD yknU
yknT
1,490,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
rsbRB
0.00
1,460,000bp
RpoA-His
ohrR
ohrB ykzN
5.00
ykwB
RpoC-His
ohrA
0.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
ykvU
RpoA-His
proA
ykzH
1,370,000bp
1,410,000bp
Experiment 1
ykgA
proB
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
ykoN
Experiment 2
ykjA
ykoL
ykzBykoM
5.00
ykoP
Experiment 1
ykhA hmp
htrA
1,360,000bp
Experiment 2
ykfD
ykkD
ykkA ykkB ykkC purU
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
10
yknU
yknV
yknW yknX
yknY yknZ
fruR
fruK
fruA
sipT
ykpA
panE
ykoA
abh kinC
ampS
rnjA
pdhB
pdhC
pdhD
defB ykzV
ykzW
slp
yktA
speA
yktB
ylaA
yktD
1,530,000bp
nprE
ylaE
bipA
ylaH
ylaK
ylaJ
ylaI
ylaF
1,540,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
glsB
ylaN ftsW
pycA
ctaB
ctaC
ctaD
ctaE ctaFctaG
ctaA
ylbBylbC
ylbE
ylbD ylbF ylbG ylbH coaD
ylbA
ylbK
ylbO
ylbN rpmF
ylbL
ylbJ
ylbM
ylzH
ylbQ
mraZ mraW ftsL pbpB
yllA
spoVD
murE
mraY
murD
spoVE
murG
murB
divIB ylxW ylxX sbp ftsA
ftsZ
bpr
ylbP
1,570,000bp
1,580,000bp
1,590,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
pdhA
5.00
1,560,000bp
RpoA-His
ykzG
ykyA
1,520,000bp
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
ykrA
0.00
ylaL
Experiment 1
adeC
ylaC
ylaB ylaD
5.00
ylaK
Experiment 2
ktrC
mreBH
ykpC
1,510,000bp
bpr
ykqA
suhB
ykzI
ykzC
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
spoIIGA sigE
sigG
ylmA
thiQ
ylmG
ylmCylmD ylmE sepF ylmH
divIVA ileS
ylyA lspA rluD
pyrR pyrP
pyrB
pyrC
pyrAA
pyrAB
pyrK pyrD
pyrF pyrE
cysH cysP
sat
cysC sumT sirB
sirC
yloB
yloC
gmk
coaBC
ylzA
rpoZ
priA
defA fmt
rsmB
yloN
yloA
1,620,000bp
1,630,000bp
1,640,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
1,610,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
11
yloN
prpC prkC
cpgA
rpe
yloU
thiN spoVM yloV
sdaABsdaAA recG
fapR plsX
fabD
rnc
fabG acpA
smc
ftsY
rpmB
1,670,000bp
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
ylqH sucC
sucD
dprA
rnjB
topA
trmFO
codV
clpQ clpY
codY
fliG
fliH fliI
fliJ ylxF fliK
flgD
1,680,000bp
1,690,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
fliL
ylzI fliM
fliY
fliZ
cheY
fliP
fliR
fliQ
flhB
flhA
flhF
ylxH
cheB
cheA
cheC
cheW
cheDsigD ylxL rpsB
1,710,000bp
RpoA-His
rnhB ylqG
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
flgD flgE
Experiment 1
rplS rbgA
flgC
flgB fliE fliF
ylqB
1,660,000bp
Experiment 2
ylqC rimM
rpsP ylqD trmD
ffh
ylxM
tsf
pyrH frr
uppS cdsA
dxr
rseP
proS
polC
ylxS nusA
1,720,000bp
rplGA
ylxR infB
rbfA
ylxP truB
ribC
rpsOpnpA
1,730,000bp
ylxY
mlpA
spoVFA
ymxH
spoVFB asd
dapG
dapA
rnjB
1,740,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
spoIIIE
tepA ylzJ
ymfC
ymfD
ymfF
ymfH
ymfI
ymfK ymfM
ymfJ ymfK
pgsAcinA
recA
pbpX
ymdA
ymdB
tdh
spoVS
kbl
ymcB
ymcA cotE mutS
mutL
pksA pksB
pksC
pksD
pksE
pksF
acpK
pksG
pksH pksI
pksJ
ymzDymcC
1,770,000bp
1,780,000bp
1,790,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
1,760,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
12
pksL
pksM
1,820,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ymzE
ymzE ymaC ymaD
ymaE
ymzB
aprX
pksS
ymzC nrdI
ymaF miaA ymaH ymzA nrdE
ebrA
ebrB ymaG
ynbB
glnR glnA
ynaD
xynP
xynB
xylA
xylB
yncC
xylR
1,880,000bp
yncB
yncE
alrB
1,890,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ynzJ thyA
yndA
ynzByndD
yndE
yndF
tatAC
yncM ynzK cotC
yndB
yndG yndHyndJ
yndKyndL
yneB
yneA
ynzC tkt
fosB
yndM
lexA
yneF
yneE
ccdA yneI yneJ
ynzD
citB
ynzL tlp yneP
yneN sspN yneQ
sspP
yneK cotM sspO
1,920,000bp
yneT parE
yneR plsY
1,930,000bp
parC
alsT
eglS
ynfC
ynfE
xynC
yngA yngB yngC
xynD
yngD
yngE
1,940,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
ynbA
0.00
1,910,000bp
RpoA-His
spoVK
1,870,000bp
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
ymaB
ynaG ynaI
ynaE ynaF ynzI
5.00
cotU
Experiment 1
nrdF
ynzF ynaB
ynxB
ynzG ynaC
cwlC
1,860,000bp
Experiment 2
1,840,000bp
0.00
pksR
yncE yncF
1,830,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
1,810,000bp
pksN
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
13
yngE
yngF yngG
yngHA
yngHB
yngI
yngJ
ynzE yngK
yngL ppsE
ppsD
ppsC
1,970,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yoeA
ggt
yoeC yoeD
yogA
ftsR
gltC
gltB
yoxC yoxB yoaA
gltA
proJ
yoaC
yoaD
yoaG
2,020,000bp
yoaH
pelB
exlX
yoaM
yoaK
yoaQ
yozS yoaN
yozF
yozT yoaR
yoaO yoaP
2,030,000bp
cyeA
yoaU
penP
yoaW yoaZ
yobA
2,040,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yobD
pps
xynA
yozI yobE
yozV yozH
yozX yozY
yobF
yozW yozJ
rapK
yozZ
phrK
yozM
yozL
yobH yozK
yobI
yobN
yoyA
yobJ
yobKyobL
yobO
yobW
yobQ
csaA
yobR yobS yobT yobU yobV
yobM
2,070,000bp
2,080,000bp
czrA
yocA
yocC yocD
des
desK
yozB yocB
yocN
yoyB yozN
desR
yocH
yocI
yocJ yocKyocL yocM
yozO
2,090,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
yoaB
yoaI
0.00
2,060,000bp
RpoA-His
yoxD
yozQ
5.00
yozU
yobA
RpoC-His
rtp
yoaF
0.00
yobB
RpoA-His
proH
yoaE
yozG
yoaS yoaT
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
1,990,000bp
5.00
2,010,000bp
Experiment 2
yoxA
0.00
yoxA
Experiment 1
1,980,000bp
dacC
5.00
iseA
Experiment 2
ppsA
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
1,960,000bp
ppsB
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
14
dhaS
sqhC
sodF
yozC
yocS
yocR
norM
odhB
odhA
yojO
yojN
sodC cwlS
yojK
deoD
2,130,000bp
yodP yodQ
yodR yodS yodT
cgeE
yoyG cgeD
cgeC
2,140,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ypqP
yotM
yotN
yotL
sspC
yotI
yotF yotC
yotJ yotG yotD
yotH yotE yotB
yotK
yosU
yosA
yosV
yosR
yosXyosW yojWyosTyosS yosP yosQ
nrdEB
yosB yorY yorW
yosL yosJyosH yosF yosD
nrdIB yosKyosI yosGyosE yosC
yorZ yorX yorV mtbP
yoqW ligB
yorS yorQ yorO yorM
yorT yorR yorPyorN
yorL
yorK
2,170,000bp
yorJ
yorI
yorH yorG
yorF
yorD yorB
yorE yorC yorA
2,180,000bp
yoqZ
yoqY yoqX
yoqT
yoqO yoqM
yoqE
yoqR
yoqJ yoqH yoqF
yoqU yoqS yoqP yoqN yoqL yoqK yoqI yoqG
yoqD
2,190,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yoyI
yoyH
yopQ
yopP
yopN yopL
yopO yopM yopK
yopG yopE
yopI
yopJ
yopH yopF
yopD yopC
yonO
yonP
yopB yopA
yonX yonV
yonN
yoyJ yonS
yonU yonT
yonR
yonJ
yonK
yonHyonG
yonF
yonE
yonD
yonCyonB
yomZ yomX
yomV
yomS
yonA yomY yomW
yomU youAyomTyomR
yonI
2,220,000bp
yomP yomN
yomQ yomO yomM
yomJ
yomK
yomI
yozPyomL youB
2,230,000bp
2,240,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
yodJ
yodM
yodN
yokU
yodL
yozD
yozE kamA
5.00
2,210,000bp
RpoA-His
ctpA
yoyF
0.00
yoqC yoqAyopY yopW yopU
yoqD yoqB yopZ yopX yopV yopT yopR
RpoC-His
yodD yodE
yoyE
5.00
yopS
RpoA-His
yodH yodI
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
Experiment 1
yodB
2,120,000bp
2,160,000bp
Experiment 2
yojA
yojB
yodC
0.00
phy
Experiment 1
yodA
cgeB
cgeA
5.00
cgeB
Experiment 2
gerT
yoyC
yojG yojF yojE
yojJ
2,110,000bp
rsbRC
yodF
yoyD
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
15
yomI
yomH yomG
yomF yomE
yomD
blyA
bhlB
bhlA
yolC
bdbB yolJ
bdbA sunT
yokLyokK yokJ yokI
yokH
yokG
yokA
ypqP
yokC yokB
ypoP
msrB msrA
yplP
ypmS
ilvA
ypmT ypmR scuA ypmP
dinF
2,280,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yphP ilvD
ypgR
ugtP
sspL
ypdP ypdQ
cspD ypzA
ypeP
degRypeQ
ypgQ bsaA
kduI
exoA
ypbS
ypzF ypbR
ypbQ bcsA
pbuX
xpt
ypwA
kdgT
kdgA kdgK
kdgR
kduD
ypzG
ypvA
2,320,000bp
yptA ypsC
ypqA
ypsA
gpsB
cotD yprB
yprA
ypqE
2,330,000bp
yppF
sspM
recU ponA
yppD
yppG yppE yppC
ypoC nth dnaD asnS
aspB
ypmA
ypmB
dinG
2,340,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
panC
panD
panB
birA
cca
ypjH
dapB
ypjG mgsA
ypjD
ypzI
ypjB
ypjA qcrC qcrB qcrA ypiFypiB ypiA
aroE
tyrA
hisC
trpA
trpB
trpF trpC trpD
trpE
2,370,000bp
aroH aroB aroF
cheR
2,380,000bp
ndk hepT
folEA
menH hepS mtrB
hbs spoIVA
yphF yphE gpsA
engA
seaA
ypzH
yphA fni
ypfD
cmk
ypfA
ypfB
ypeB
sleB
2,390,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
ypiP
0.00
2,360,000bp
RpoA-His
ypjQypjP
5.00
dinG
Experiment 1
ypkP dfrA thyB
2,290,000bp
ypjC
Experiment 2
yplQ
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
yolB yolA
2,270,000bp
2,310,000bp
Experiment 1
yolD
yokE yokD
0.00
metA
Experiment 2
sunI
sunA uvrX
yokF
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
2,260,000bp
ypiP
yoyK
yoyK
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
16
fer
sleB
prsW ypdA
gudB
mecB ypbG ypbFypbE ypbD recQ
ypbB
serA
fmnP ypzE
ypuF
aroC
rsiX
sigX
resE
resD
resC
resB
2,420,000bp
yqzK
fur
2,440,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
mleN
ansB
ansA
yqxK
yqkF
nudF
yqkD
yqkE
yqzH yqjV
yqkB
yqkC yqkA
yqjY
polYB
yqjZ
yqjX
yqjU
proI
yqjTcoaA
dsdA
yqjQ yqjP
yqjM
yqjL
yqjN
oxaAB
yqzJ
yqjF
zwf
rnz
gndA
2,470,000bp
polYA
bmrU
yqjE
yqjD
yqjC yqjB yqjA
2,480,000bp
artR artQ artP
bmr
bmrR
yqiW
bkdB
bkdAB bkdAA
2,490,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
buk
bcd
ptb
bkdR
prpB
yqiG
prpD
prpC
mmgC
mmgB mmgA
yqiK
yqiI yqiH
yqhQ
spo0A
spoIVB
recN
ahrC yqxC dxs
ispA
2,520,000bp
xseA
xseB
folD
nusB yqhY accC
2,530,000bp
spoIIIAG spoIIIAE spoIIIAC spoIIIAA efp
accB spoIIIAH spoIIIAF
spoIIIAD spoIIIAB
yqhV
yqhT
yqhS yqhR
yqhP
yqhO
yqhL
mntR yqhM
gcvPB
yqhH
gcvPA
gcvT
2,540,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
ripX
0.00
2,510,000bp
RpoA-His
2,430,000bp
pupG drm
5.00
bkdAA lpdV
RpoC-His
spoVAF
0.00
yqzF
RpoA-His
lysA
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
ppiB
spoVAEB
spoVAB sigF
spoIIAA
spoVAEA spoVAD spoVAC spoVAA
spoIIAB dacF
5.00
2,460,000bp
Experiment 2
ypuDsipS
ypuA
0.00
yqkK
fur spoIIM mleA
Experiment 1
ribE ribD
ypuC ypuB
ypzJ ypuC
ypzD
5.00
ansR
Experiment 2
ypuI spcB scpA
ribH
ypzK
ribAB
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
2,410,000bp
resA rluB
spmA
spmB
dacB
ypzC
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
17
yqhH
yqhG
sinR
sinI
yqzG
tasA
sipW yqxM
yqhB
comGG comGE comGC
yqzE comGF comGD comGB comGA
yqgY
yqxL
rsbRD
yqzC
yqzD
yqgW
mgsR yqgX
yqgU
yqgV
yqgT
yqgS
yqgA
2,580,000bp
yqfX
zur yqfU
nfo
cshB
yqfO
trmK cccA
2,590,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
dnaG
yqxD yqfL
yqeW
ccpN glyS
glyQ
era
recO yqzL
yqfG
cdd dgkA yqfF
phoH
yqfD
yqfB
yqfC yqfA
yqeZ
yqeYrpsU
rpsT
rimO
rsmE prmA
dnaJ
dnaK
grpE hrcA
2,620,000bp
hemN
lepA
yqxA spoIIP gpr
yqzM
holA
comER
comEC
2,630,000bp
sda
yqeL nadD aroD
yqeM
yqeK
yqeI
comEB comEA
yqeH
yqeG
yqeD
yqeF
cwlH
2,640,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yqeB
spoIVCB
nucB
spoIVCA
rapE
arsC arsB
yqzI
phrE yqcG
yqcF
yqdB
yqxI
yqxJ
cwlA
yqcKarsR yqcI
yqxG
yqxH
yqcD
yqcE yqcC
yqcA
yqcB yqbT
yqbR
yqbS yqbQ
yqbN
yqbN
yqbP yqbO
2,670,000bp
yqaP
yqbM yqbK
2,680,000bp
yqbJ
yqbG yqbE
yqzN yqbI yqbH yqbF
yqbD
yqbC yqbB
yqbA
yqaT
yqaS yqaR yqaQ
yqaE
yqaN yqaM
yqaO yqzO yqaL yqaK yqaJ
yqaH
yqaF
yqaI yqaGyqdA yqaD
2,690,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
sodA yqgC
0.00
2,660,000bp
RpoA-His
yqgE
5.00
yqeC
RpoC-His
pbpA
ispH
0.00
yqeD
RpoA-His
pstS
yqfQ
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
pstC
yqfT
0.00
2,610,000bp
Experiment 2
pstBB pstBA pstA
yqfW
5.00
sigA
Experiment 1
yqgL
2,570,000bp
antE
Experiment 2
yqgN yqgM
yqgO rpmGA
yqfZ ispG
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
2,560,000bp
glcK
glpG
yqgQ
yqgB
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
18
yqaB spoIIIC
yqaC
yrkO
yrkS psiE yrkQ
yrkN
yrkP
blt
yrkL
yrkK
yrkJ
bltD
yrzM yrkC
bltR
yrkF yrkE yrkD yrzN
yrkB
yrkI yrkH
yrdQ
yrkA
2,720,000bp
alaS
yraN
csn
2,740,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yraF
yraG adhB
yraD
yraE
yraH
adhA
yrzP
yraB
yraA
aapA
sacC
levG
levF
levE levD levR
yrhO
sigV rsiV
yrhP
oatA
yrhK
yrhE
cypB
bscR yrhH
2,770,000bp
yrzI yrhG
yrhD
yrzA
mccB
yrhC
yrhF
mccA
mtnN yrrT
yrrS
2,780,000bp
pbpI
greA udk yrrO
yrrN
yrrM
yrrL
yrrK
yrzB yrzL alaS
2,790,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
glnM glnP
yrvN
yrrD
yrzR
yrzQ yrrC
yrrB trmU
iscS
cymR
yrvJ
yrvM
aspS
hisS
yrzK
spoVB
dtd relA
apt recJ
yrvD yrvC secDF
2,820,000bp
comN
2,830,000bp
yrzE
yrbG
yrbF tgt
yrzF
queA
ruvB
yrzS
ruvA bofC csbX
yrbE
yrzT
yrzH yrbD
nifS
yrbC
coxA safA
nadA
nadC nadB
2,840,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
yraO
5.00
2,810,000bp
RpoA-His
2,730,000bp
sigZ
yraL
0.00
yrrI
RpoC-His
yrpE
yraM
5.00
glnQ glnH
RpoA-His
yrdA aadK
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
yrdF cypA
yrdD
yrdD
yrdD yrdC yrdB
yrpG
0.00
2,760,000bp
Experiment 2
yrdN
azlC
azlD
azlB
yrpD
5.00
yraJ yraI
Experiment 1
czcD
brnQ
yrdK
yrpC
0.00
yraK
Experiment 2
yrdP
yrpB
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
2,710,000bp
yrdR
yrzO
gltR
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
19
nifS
nadR
yszA
pheA yszB obg
ysxB spoIVFB
spo0B rpmA rplU
spoIVFA minD minC mreD mreC mreB
radC maf
spoIIB
comC folC
valS
spoVID
hemL
hemB
hemD hemC
abnA
2,880,000bp
leuB
leuA
ilvC
ilvH ilvB
2,890,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
gerM
racE
ysmA
ysmB gerE sdhB sdhA
sdhC
lysC
ysfB
sspI
rnhC
uvrC
trxA xsa
etfA
etfB
fadB fadR lcfA
yshE mutSB
polX
yshB yshA
pheT
pheS
2,920,000bp
glcD
glcF
ysgA
ysfE cstA
abfA
2,930,000bp
araQ
araP
araN
araM
araL araD araB
araA
abnA
2,940,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ysdC
rplT infC
ysdA rpmI
yscB
ysaA
lrgB lrgA lytT
lytS
ytbD
thrS
ytxC
ytxB dnaI
dnaB
nrdR speD gapB
ytbE
ytcD
ytrI
ytrH
ytvI
coaE ytaF mutM polA
phoR
2,970,000bp
phoP
mdh
icd
2,980,000bp
citZ
ytwI
ytzA pyk
pfkA
accA
accD
ytsJ
dnaE
ytzJ
nrnA
ytpI
ytoI
ytnM
ytnL
2,990,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
leuD leuC
0.00
2,960,000bp
RpoC-His
ysoA
5.00
ysdB
RpoA-His
tig
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
clpX
0.00
2,910,000bp
Experiment 2
lonB
5.00
ysnBysnA rph
Experiment 1
ysxC lonA
2,870,000bp
yslB
Experiment 2
hemX hemA
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
ysxD
ysxE
2,860,000bp
ysnE
ysnD
ysnF
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
20
ytlI
ytnL
rbfK ytnJ
ytmO
ytnI
tcyN tcyM tcyL tcyK
tcyJ
ytmI
ppnKB
ytkL ytkK
argH
ytzD
argG
moaBackA
ytxK
tpx ytfJ ytfI
ccpA
aroA
ytpS
3,040,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ytpR ytpQ ytpP
ytzB
ytoP
ytzH
malS
ytnP
trmB
ytmP
ytkP
amyX
ytlR
ytlQ
ytlP
pbuO
ytzE
ytjP
ythQ
ythP
ytfP
opuD
ytdP
yteU
yteV
yteT
ytzG ytgP
3,070,000bp
yteSyteR
msmR
yteP
ytcQ
ytcP
ytbQ
3,080,000bp
bioI
bioB
bioD bioF
bioK
bioW
msmE
amyD
ytaP
3,090,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ytvA
ytvB
yttA
yttB
ytqA
bceB
bceA bceS
bceR ytrF
ytrE ytrD
ytrC
ytrB
ytrA ytzC
ytqB
ytoA
ytpB
ytpA
pckA
ytnA
asnB
3,120,000bp
metK
ytlA
ytmB ytmA
3,130,000bp
ytlC
ytlD
ytzI
ytkD ytkC dps
ytkA luxS
ytjA
ythA
ytiB rpmEB
ythB
ytzL
mntD
mntC
mntB mntA
menC
menE
menB
ytxM
3,140,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
3,030,000bp
ytxE ytxD
5.00
3,110,000bp
RpoA-His
tyrS
ytxH
ytxJ ytxG murC
0.00
ytwF leuS
RpoC-His
ytrP
acsA
ytzK
5.00
amyD amyC melA
RpoA-His
yttP
acuA acuB acuC
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
ezrA
3,020,000bp
3,060,000bp
Experiment 2
iscS
rpsD
0.00
ytpS
Experiment 1
ytcI
ytsP
5.00
ytoQ
Experiment 2
ytcJ
thiI
sspA
hisJ
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
3,010,000bp
yteJ sppA
braB
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
21
yteA
ytxM menD
menF
ytcA
ytcB
ytcC
ytdA
cotI
ytxO cotS
ytaB
cotSA
thiT
glgP
glgA
glgD
glgC
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
3,180,000bp
yubD
uppP
yubA
yulE
yulD
yulC
3,190,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yugO
mstX
yulB
yuxG
tlpB
mcpA
tlpA
mcpB
yugU
yuzH
yugT
yugS
yugP yuzI
yuzA
yugM
yugN pgi
yugK
yugJ
yugF
yugI yugH
yugG
patB
kinB
kapB
yugE
3,220,000bp
kapD
yuxJ
pbpD
yuxK
yufL
yufM
yufN
yufO
yufP
yufQ
maeN
yufK
mrpC mrpD
mrpB
mrpA
yufS
3,230,000bp
3,240,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
mrpF
mrpE mrpG
yuzC
comQ
comX
degQ
yuxH
yuzE
pncB
yueH yueF
pncA yueI yueG
yueE
yuzF
yueD yueC yueB
yukF
yukB
yukC
yukE
yukD
3,270,000bp
ald
yukJ
bioYB
ybdZ dhbF
3,280,000bp
dhbB
dhbE
dhbC
dhbA
besA
yuiH
yuiF
yuiD
pepA
yuiA
yuiC yuiB
3,290,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
yubF lytG
yulF
0.00
3,260,000bp
Experiment 1
gbsA
cdoA
5.00
comA
yuxO
comP
Experiment 2
yuaD gbsB
ktrA ktrB
0.00
3,210,000bp
mrpD
yuaF
yuaC yuaB
5.00
tgl
yulC
yuaI yuaG
3,170,000bp
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
3,160,000bp
glgB
yuaE
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
22
yumC
yumB
guaC
yuzG
yutJ
paiB paiA
yutM dapF yutK
yuzB
yutI
yutG
yuzD yuxL
thrB
thrC
hom
yutH
yutC
yutF
yutE yutD
yvqJ
yunG pucH
bsn
pucE pucD
pucC pucB pucA
3,330,000bp
pucG
pucF
frlR
yurJ
frlD
frlM
frlN
frlO
3,340,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yurS
sspG
frlB
yurQ yurR
yuzL
yurTyuzN sufB
iscU sufS
sufD
sufC
yurZ
yuzK metN metP metQ
yusE yusG yusI
yusD yusF yusH fadE
fadA
fadN
yusN
yuzM yusO yusP
yusT
yusR
yusQ yusS
fadM
yusZ
yusV
yusU
3,370,000bp
yusW yusY
yusY
mrgA
cssR cssS
htrB
yuxN
yuzO
gerAA
fumC
3,380,000bp
yvzF
gerAB
gerAC
liaR liaS
liaF
liaG
liaH liaI yvqJ
3,390,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yvqK yvrA
yvrB
yvrC
yvrJ oxdC
yvrE
yvrG
yvrH
sigO
rsoA
yvrL
yvrN
fhuD
yvrO yvrP
fhuC
fhuG
fhuB
yvsG yvgJ
lysP
sspJ
yvgL yvgM
yvgK
yvgO
yvgN
3,420,000bp
nhaK
yvaA
cysI
3,430,000bp
cysJ
helD
bdbD
yvgT bdbC
copB
copA
csoR
copZ
yvaB yvaC
yvaE
yvaD yvaF
yvaG
3,440,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
pucM yuzJ
0.00
3,410,000bp
RpoC-His
pucL
5.00
yvrD
RpoA-His
pucK
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
yunE yunF
3,320,000bp
3,360,000bp
Experiment 1
yunB yunC yunD
pucJ
0.00
frlO
Experiment 2
lipA
pucR
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
3,310,000bp
lytH
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
23
rghRB
rghRA yvaP yvaQ
yvaM
yvaG
smpB rnr
yvaK
secG
yvaV sdpAsdpB
spbC
opuCD
sdpI sdpR
opuCC opuCB opuCA
opuBC
opuBD
opuBB opuBA
yvzC
yvbF
rsbQ
malK
gapA
cggR
araE
yvbT
yvbU
3,480,000bp
yvbW
yvbX
yvbY yvfW
yvfV
yvfU yvfT
yvfS yvfR
3,490,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
rsbP
yvfH
ganA
ganQ ganP
cycB
ganR
yvfG
yvfI
sigL
epsO
slrR pnbA
epsN
epsM epsL epsK
epsJ
epsI
epsH
epsG
epsF
epsE epsD
epsC
epsB epsA
3,520,000bp
sacB
levB
yvdR
yvdT yvdS
yveA
yveG racX
padC yveF pbpE
cotR
clpP
yvdQ yvdP
3,530,000bp
pgcM malL
malK
3,540,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yvdJ
mdxG mdxF
mdxE
mdxD
mdxR
yvdD
yvdB
yvcT
yvdA
yvzJ
yvcS
yvcR
yvcQ
yvcP
yvpB
yvcN crh whiA
yvcK
yvcJ
yvcI
trxB
cwlO
yvcD
3,570,000bp
bmrA
yvzA yvcB
3,580,000bp
yvcA
hisI hisF
hisA hisH hisB hisD
pelC
hisG hisZ
nagA
yvoF ppaX yvoD
lgt
hprK
nagBA yvoA
yvnB
3,590,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
pgk
5.00
3,560,000bp
RpoC-His
tpiA
rsbQ
0.00
yvdC
RpoA-His
pgm
cyeB
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
eno
3,470,000bp
3,510,000bp
Experiment 1
yvbJ
araR
5.00
ganB
Experiment 2
yvbG
yvbK
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
3,460,000bp
yvbH yvbI
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
24
yvnA
yvnB
cypX
yvmB yvmA
yvkN
yvlC
yvlD yvlB
yvmC
yvlA
yvkC
yvzB uvrA
uvrB
yvkB yvkA
csbA
minJ
flgK
3,630,000bp
yviA
degU degS
tagO
tuaH
3,640,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
tuaG tuaF tuaE
tuaD
tuaC
tuaB
tuaA
tuaA lytC
lytB
lytA
gtaB
yvzE
ggaB
yvzH
mnaA
ggaA
yvzI
tagA tagB
tagH
tagG
tagF
tagE
3,670,000bp
tagC
tagD
gerBA
lytD
gerBB
gerBC
yvyI
ywtF
ywtE
ywtG
3,680,000bp
pgdS
pgsA
pgsE
pgsB
pgsC
3,690,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
rbsK
rbsD rbsA
rbsC
rbsB
ywsB ywsA
ywrO alsD
alsR
alsS
ywrK
cotG ywrF ywrE
ywrJ cotB
cotH
ywrC ywrB ywrA
ywrD
ywqM
ywqN
ywqO
ywqB
ywqL ywqK ywqJ
3,720,000bp
ywqH
ywqI
ywqG
ywqF
3,730,000bp
ywqE ptkA ywqC
ywzD
ywqA
ywpF
ywpJ
glcR
ssbB ywpG ywpE
ywpD
rapD
mscL fabZ
ywoH
flhP
flhO
mbl
ywoG
usd
spoIIID
3,740,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
yvyC hag
0.00
3,710,000bp
RpoA-His
secA
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
pgsB
RpoC-His
prfB
comFB
flgM
yvyG yvyF comFC comFA
5.00
rbsR
RpoA-His
cccByvjA
fliW
csrA yviE flgL
0.00
3,660,000bp
Experiment 1
ftsE
fliT
yvyD yvzG fliS fliD
5.00
tuaH
Experiment 2
ftsX
3,620,000bp
lytR
Experiment 1
swrAA
swrAA ctpB
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
3,610,000bp
Experiment 2
yvyE yvhJ
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
25
ywoG
amtB
ywoF
pucI
ywoD
glnK bcrC
ywoC ywoB
ywnH ywnG
ywnJ spoIIQ
clsA
ywnC
ywnF
mta
ywmA
ureA ywzF ywmF
ureB ywzE csbD rapB
ywnB ywnA ureC
ywkB
atpA
upp
glyA
3,780,000bp
ywlG ywlF ywlEywlD ywlC
ywlBspoIIR
ywkB
3,790,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
maeA
tdk
rho
rpmEA
ywjI
murAB
ywjH fbaA
spo0F
clsB
pyrG
rpoE acdA
ywjD
fadF
ywjC
sboX
sboA albA
ywiC
ywjB ywjA
ywiE
narI narJ narH
narG
arfM
3,820,000bp
fnr
narK
argS
albC
albB albD
albE
albF
albG
ywiB
rapF
ywhL
3,830,000bp
ywhK
ywhH
phrF
speB
pbpG
speE
3,840,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
ywhB
rsfA
mmr
ywgB ywgA ywfO
ywzC
ywfI
ywfM
ywfL
cysL
pta
ywfH
ywdL
bacF
bacE
bacD
bacC bacB bacA ywfA
rocC
3,870,000bp
rocB
rocA
rocG
3,880,000bp
yweA spsL spsK spsJ
spsI
spsG
spsF spsE
spsD
spsC
spsB
spsA
ywdK ywdJ
ywdH
ywdI
ung ywdF
ywdE ywdD
3,890,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
atpG
0.00
3,860,000bp
RpoA-His
atpC atpD
5.00
ywhDywhC ywhA thrZ
RpoC-His
ywmB ywzB
0.00
pbpG
RpoA-His
murAA
prmC
ywkF
prfA
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
Experiment 2
spoIID
ywkDracA
5.00
3,810,000bp
Experiment 1
ywmC
3,770,000bp
ywjG
Experiment 2
fdhD
atpB
atpH atpF atpE
atpI
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
3,760,000bp
moaA
ywmD
ywmE
ywlA
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
26
pdxK
ywdDywzG
ywcJ
sacA
ywdA
sacP
vpr
sacT
ywcE
ywcI
ywcH
nfrA
ywzA
qoxC
qoxD qoxB
rodA
qoxA
galT
ywbD
ywbB ywbA
3,930,000bp
ywaE tyrZ
gspA
ywaD
ywaF
ywaC
3,940,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
dltA
ywzH
dltD
dltC
dltB
dltE
ilvK
katX
licH
licC
licA
yxlH
aag
yxzF
licB licR
yxlA
yxlG yxlF
yxlD sigY
yxlE yxlC
cimH
yxkO
cydD
cydC
3,970,000bp
cydB
yxkI
yxzE
cydA
yxkH
aldY
msmX
yxkF
yxkC
yxkD
3,980,000bp
yxjO
galE
yxjN yxjM
yxjL pepT
yxjJ yxjI
yxjH
yxjG
yxkA
3,990,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yxjA
scoB scoA yxjC
yxjB
citH
yxiT
yxiT yxiS katE
yxiO
bglS
licT
yxiP
hutP hutH
deaD
yxiM
yxzJ yxiJ
yxiH
yxzC
yxzI yxiK yxiI yxzG yxiG yxiF
yxxG wapA
yxxF
4,020,000bp
4,030,000bp
yxiE bglH
bglP
yxxD
yxxE yxiD
yxiB
yxiC
abnB
yxzL
hutU
hutI
hutG
hutM
pdp
4,040,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
ywbI
sacY
5.00
4,010,000bp
RpoA-His
thiE thiM
sacX
0.00
yxjF
RpoC-His
efeU
epr
5.00
yxjG
RpoA-His
efeM
ywbC
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
ywbO efeN
3,920,000bp
3,960,000bp
Experiment 2
ywcD ywcC
ywbE
0.00
ywaC menA
Experiment 1
galK
cidA lrgB ywbF
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
3,910,000bp
Experiment 2
ywcA
slrA ywcB
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
27
yxeE yxeD
pdp
nupC
deoC deoR
yxxB
yxeR
yxeQ
yxeP
yxeO yxeN yxeM yxeLyxeK
yxeI
yxeJ
yxeH yxeG yxeF
yxeB
yxeC
iolR
yxeA yxdM
iolE
iolD
iolC
iolB
mmsA
htpG
4,080,000bp
yxcA
yxbF
yxbD yxbC
4,090,000bp
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yxaM
yxaI
yxaJ
yxnA
yxaH
qodI
yxaF
yxzK yxaC
yxaD
gntR gntK
yxaB
gntP
gntZ
ahpC ahpF
glxK
yydK yyzN
bglA
yyzE
yydJ yydI
fbp
yydH yydG
yycS
yydF
yydD
4,120,000bp
yydC yydB
rapG
yydA yyzF yycR
yycQ
yyzG yycP
4,130,000bp
yycO
yycN
phrG
argI
rocR
rocE
rocD
yyzO htrC
yycJ
yycI
4,140,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
yycB
yycDyycC
walK
walR
purA
yycE dnaC
yyzB
yycA
cotF
rplI yybT
yybS
ppaC
yyzH yybR
yybO
yybP
yybNyybM yybL yybK yybJ
yyzJ yyzL
yyzI
yyzK
yybG
yybI
4,170,000bp
yybH
yybE
yybF
4,180,000bp
yybDyybC
yyaTyyaS
yybB yybA
yyaR
yyaN
yyaO yyaM
yyaQ yyaP
tetB
tetL
yyaL
yyaJ
yyaK
yyaH
maa
ccpB
ssbA
exoAA rpsR rpsF engD
4,190,000bp
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
iolF
5.00
4,160,000bp
RpoC-His
iolG
0.00
yycI
walH
RpoA-His
iolH
5.00
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 1
iolI
4,070,000bp
4,110,000bp
Experiment 2
iolJ
aldX
0.00
yxaL
Experiment 1
yxdJ
yxbG
5.00
asnH
Experiment 2
yxdK
yxcE yxcD csbC
RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint RpoAdel RpoAint
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
4,060,000bp
yxdL
iolS
yxnB
yxbB aslA asnH
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
28
yyaC
engD
yyaE
yyaD
yyzM
yyaB
parB
parA
noc
rsmG trmF
trmE
jag
rpmH
oxaAA rnpA
del
int
del
int
del
int
del
int
RpoA RpoA RpoA RpoA RpoA RpoA RpoA RpoA
RpoC-His
RpoA-His
RpoC-His
RpoA-His
Experiment 2
Experiment 1
4,210,000bp
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
5.00
0.00
29
S10. Fig. Genome-wide RNAP binding profiles determined by ChAP-chip analysis. RpoAint-His, RpoAdel-His and
RpoC-His were used as bait for the purification of RNAP complexes. The gene arrangement on the B. subtilis
chromosome is shown by thick arrows at the top of the figure. Colors: sky blue indicates genes that are downregulated in rpoAdel-expressing cells compared with rpoAint-expressing cells, as determined by transcriptomic
analysis; green indicates the top 50 genes showing the greatest reductions in RNAP binding among rpoAdelexpressing cells versus rpoAint-expressing cells; and dark blue indicates the genes that showed both
transcriptomic down-regulation and high-level reductions in RNAP binding in rpoAdel-expressing cells.
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