breseq  version 0.35.4  revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence position mutation annotation gene description
RA 49,736 A→T intergenic (+105/‑87) kefC → / → folA glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase
RA 49,903 T→A D27E (GAT→GAA folA → type 3 dihydrofolate reductase
RA 50,280 T→C F153S (TTT→TCT)  folA → type 3 dihydrofolate reductase
RA 108,362 A→G F242S (TTC→TCC)  zapD ← cell division protein ZapD
RA 115,488 T→C F90S (TTC→TCC)  ampD → 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD
RA 115,628 A→C T137P (ACG→CCG)  ampD → 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD
RA 139,618 A→G E118G (GAA→GGA)  yadG → ABC transporter ATP‑binding protein
RA 209,716 T→C I300T (ATC→ACC)  tilS → tRNA lysidine(34) synthetase TilS
RA 221,335 T→C noncoding (1078/1542 nt) BW25113_RS01010 → 16S ribosomal RNA
RA 232,840 T→A V96E (GTG→GAG)  dnaQ → DNA polymerase III subunit epsilon
RA 264,689 (A)5→4 intergenic (‑18/+311) ykfA ← / ← perR GTPase family protein/LysR substrate‑binding domain‑containing protein
RA 297,509 G→C G30G (GGC→GGG paoB ← aldehyde oxidoreductase FAD‑binding subunit PaoB
RA 340,444 (A)5→4 coding (558/816 nt) BW25113_RS01680 → hypothetical protein
RA 354,025 T→C E126G (GAA→GGA)  cynR ← transcriptional regulator CynR
RA 386,045 T→C pseudogene (339/1527 nt) BW25113_RS01915 → outer membrane autotransporter barrel domain‑containing protein
RA 444,519 G→A R527C (CGT→TGT)  cyoB ← cytochrome o ubiquinol oxidase subunit I
RA 448,331 G→T A224D (GCC→GAC)  ampG ← muropeptide MFS transporter AmpG
RA 465,464 T→C S380P (TCG→CCG)  mdlA → SmdA family multidrug ABC transporter permease/ATP‑binding protein
RA 508,601 (C)6→7 coding (570/1293 nt) ybaT → APC family permease
RA 539,975 A→G D258D (GAT→GAC allC ← allantoate deiminase
RA 554,427 A→G intergenic (+217/‑3) fimA → / → fimC type 1 fimbrial major subunit FimA/type 1 fimbria chaperone FimC
RA 575,614 A→G intergenic (+72/+93) BW25113_RS02885 → / ← ylcI hypothetical protein/YlcI/YnfO family protein
RA 578,971 (A)6→5 intergenic (+380/‑166) BW25113_RS26085 → / → appY tail fiber assembly protein/DNA‑binding transcriptional activator AppY
RA 579,943 (T)8→7 intergenic (+57/+193) appY → / ← ompT DNA‑binding transcriptional activator AppY/omptin family outer membrane protease OmpT
RA 587,468 A→C D389E (GAT→GAG nrfB ← cyclic di‑3',5'‑guanylate‑activated glycosyltransferase NrfB
RA 601,986 A→G F285S (TTC→TCC)  ybdK ← YbdK family carboxylate‑amine ligase
RA 661,892 A→C G594G (GGT→GGG mrdA ← peptidoglycan DD‑transpeptidase MrdA
RA 674,442 T→G T141P (ACT→CCT)  ybeT ← tetratricopeptide repeat protein
RA 701,647 G→A P33P (CCG→CCA glnS → glutamine‑‑tRNA ligase
RA 802,549 T→G T63T (ACA→ACC ybhC ← putative acyl‑CoA thioester hydrolase
RA 879,010 T→C intergenic (‑166/‑119) ybjG ← / → mdfA undecaprenyl‑diphosphate phosphatase/multidrug efflux MFS transporter MdfA
RA 901,740 G→A A157V (GCG→GTG)  ybjS ← NAD(P)‑dependent oxidoreductase
RA 951,809 T→G T94P (ACC→CCC)  ycaO ← 30S ribosomal protein S12 methylthiotransferase accessory factor YcaO
RA 979,260 T→C I52T (ATC→ACC)  gloC → hydroxyacylglutathione hydrolase GloC
RA 1,060,988 (A)6→5 intergenic (+240/‑53) yccE → / → agp YccE family protein/bifunctional glucose‑1‑phosphatase/inositol phosphatase
RA 1,062,210 T→C G390G (GGT→GGC agp → bifunctional glucose‑1‑phosphatase/inositol phosphatase
RA 1,065,426 T→G T129P (ACC→CCC)  rutF ← pyrimidine utilization flavin reductase protein F
RA 1,076,727 (T)5→4 intergenic (+458/‑85) putP → / → BW25113_RS05295 sodium/proline symporter PutP/FTR1 family protein
RA 1,110,952 T→C intergenic (‑6/+166) mdtG ← / ← lpxL multidrug efflux MFS transporter MdtG/kdo(2)‑lipid IV(A) lauroyltransferase
RA 1,196,737 (C)5→4 coding (100/312 nt) BW25113_RS25530 ← hypothetical protein
RA 1,215,948 T→C pseudogene (487/2243 nt) BW25113_RS25990 → autotransporter outer membrane beta‑barrel domain‑containing protein
RA 1,240,670 Δ1 bp coding (55/441 nt) BW25113_RS06225 → hypothetical protein
RA 1,259,173 A→G T2A (ACC→GCC)  hemA → glutamyl‑tRNA reductase
RA 1,276,251 Δ1 bp coding (932/3744 nt) narG → nitrate reductase subunit alpha
RA 1,300,524 Δ1 bp coding (504/1005 nt) oppF → murein tripeptide/oligopeptide ABC transporter ATP‑binding protein OppF
RA 1,325,886 T→C G194G (GGT→GGC topA → type I DNA topoisomerase
RA 1,331,016 A→G Y310C (TAT→TGT)  acnA → aconitate hydratase AcnA
RA 1,392,826 T→C Q18Q (CAA→CAG uspE ← universal stress protein UspE
RA 1,394,163 G→A L111L (CTG→TTG)  ogt ← methylated‑DNA‑‑[protein]‑cysteine S‑methyltransferase
RA 1,402,000 A→G I18T (ATC→ACC)  dgcM ← diguanylate cyclase DgcM
RA 1,417,788 (C)6→7 coding (69/120 nt) BW25113_RS26130 ← hypothetical protein
RA 1,423,602 T→C R99R (CGT→CGC stfR → prophage tail fiber N‑terminal domain‑containing protein
RA 1,431,536 T→C E1169G (GAA→GGA)  nifJ ← pyruvate:ferredoxin (flavodoxin) oxidoreductase
RA 1,434,377 A→G F222S (TTC→TCC)  nifJ ← pyruvate:ferredoxin (flavodoxin) oxidoreductase
RA 1,438,627 A→G K440K (AAA→AAG ydbH → YdbH family protein
RA 1,454,774 A→G D16G (GAT→GGT)  paaI → hydroxyphenylacetyl‑CoA thioesterase PaaI
RA 1,499,566 A→G S258P (TCC→CCC)  ydcO ← BenE family transporter YdcO
RA 1,503,965 T→C D67D (GAT→GAC hicB → type II toxin‑antitoxin system antitoxin HicB
RA 1,505,430 A→G K391E (AAA→GAA)  ydcR → PLP‑dependent aminotransferase family protein
RA 1,524,815 T→C intergenic (‑54/‑28) BW25113_RS25600 ← / → BW25113_RS07655 protein YncO/ISAs1 family transposase
RA 1,531,275 G→A L98L (CTG→TTG)  narW ← nitrate reductase molybdenum cofactor assembly chaperone
RA 1,547,935 A→G V54A (GTA→GCA)  adhP ← alcohol dehydrogenase AdhP
RA 1,558,439 A→G Y518H (TAT→CAT)  dosP ← oxygen‑sensing cyclic‑di‑GMP phosphodiesterase
RA 1,573,157 A→T I148N (ATC→AAC)  yddA ← ABC transporter ATP‑binding protein/permease
RA 1,575,825 A→T D319E (GAT→GAA ydeN ← sulfatase
RA 1,576,388 A→G S132P (TCC→CCC)  ydeN ← sulfatase
RA 1,579,109 A→C G545G (GGT→GGG ydeP ← acid resistance putative oxidoreductase YdeP
RA 1,613,753 (A)6→5 coding (377/435 nt) marR → multiple antibiotic resistance transcriptional regulator MarR
RA 1,615,188 A→C S69R (AGT→AGG eamA ← O‑acetylserine/cysteine exporter
RA 1,626,268 A→G pseudogene (359/1368 nt) ydfJ ← MHS family MFS transporter
RA 1,632,437 (T)7→6 intergenic (‑71/+8) BW25113_RS08135 ← / ← BW25113_RS25620 hypothetical protein/hypothetical protein
RA 1,634,151 Δ1 bp coding (164/534 nt) rrrQ ← lysozyme
RA 1,649,476 A→G intergenic (‑78/+128) rspA ← / ← ynfA starvation‑sensing protein RspA/YnfA family protein
RA 1,659,576 T→C F14S (TTC→TCC)  clcB → voltage‑gated ClC‑type chloride channel ClcB
RA 1,662,649 T→G H58P (CAC→CCC)  mlc ← DNA‑binding transcriptional repressor Mlc
RA 1,671,899 T→G T88P (ACG→CCG)  pntA ← Re/Si‑specific NAD(P)(+) transhydrogenase subunit alpha
RA 1,673,542 A→G K287E (AAG→GAG)  ydgH → DUF1471 family protein YdgH
RA 1,717,498 G→C G374A (GGC→GCC)  ydhK → FUSC family protein
RA 1,760,505 (T)5→4 coding (2438/3057 nt) ydiJ ← FAD‑binding and (Fe‑S)‑binding domain‑containing protein
RA 1,782,276 T→G V192G (GTG→GGG)  ppsR → posphoenolpyruvate synthetase regulatory kinase/phosphorylase PpsR
RA 1,795,564 T→A T422S (ACT→TCT)  thrS ← threonine‑‑tRNA ligase
RA 1,803,201 A→G V97A (GTC→GCC)  yniB ← YniB family protein
RA 1,807,028 T→C E121G (GAA→GGA)  BW25113_RS09050 ← hypothetical protein
RA 1,812,807 (C)7→8 intergenic (‑50/+55) celF ← / ← chbR 6‑phospho‑beta‑glucosidase/transcriptional regulator ChbR
RA 1,818,674 A→C L174R (CTG→CGG)  ves ← environmental stress‑induced protein Ves
RA 1,838,813 T→C I106V (ATT→GTT)  ynjI ← DUF1266 domain‑containing protein
RA 1,854,126 T→C M121V (ATG→GTG)  ydjK ← MFS transporter
RA 1,868,213 T→C F128S (TTC→TCC)  yeaK → mischarged aminoacyl‑tRNA deacylase
RA 1,877,816 T→C pseudogene (408/1482 nt) yeaV → BCCT family transporter YeaV
RA 1,878,490 T→C pseudogene (1082/1482 nt) yeaV → BCCT family transporter YeaV
RA 1,903,061 A→T intergenic (‑38/‑121) mgrB ← / → yobH PhoP/PhoQ regulator MgrB/YobH family protein
RA 1,909,798 T→C intergenic (‑7/+90) proQ ← / ← msrC RNA chaperone ProQ/L‑methionine (R)‑S‑oxide reductase
RA 1,934,547 T→C intergenic (‑97/+23) lpxM ← / ← mepM lauroyl‑Kdo(2)‑lipid IV(A) myristoyltransferase/murein DD‑endopeptidase MepM
RA 1,965,782 T→G E389D (GAA→GAC tar ← methyl‑accepting chemotaxis protein II
RA 1,980,420 A→G G5G (GGA→GGG ftnB → non‑heme ferritin‑like protein
RA 2,003,480 T→C F60S (TTC→TCC)  yedK → SOS response‑associated peptidase
RA 2,038,183 (T)5→4 intergenic (+78/‑236) BW25113_RS10330 → / → yeeJ tRNA‑Asn/inverse autotransporter adhesin YeeJ
RA 2,057,664 T→C G95G (GGA→GGG cobT ← nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase
RA 2,064,259 T→G V93G (GTG→GGG)  BW25113_RS10440 → GTPase family protein
RA 2,102,646 T→C G140G (GGA→GGG wzx ← O16 family O‑antigen flippase
RA 2,122,248 C→A R41L (CGC→CTC)  wcaF ← colanic acid biosynthesis acetyltransferase WcaF
RA 2,122,528 T→G T202P (ACC→CCC)  wcaE ← colanic acid biosynthesis glycosyltransferase WcaE
RA 2,122,677 A→G F152S (TTC→TCC)  wcaE ← colanic acid biosynthesis glycosyltransferase WcaE
RA 2,131,004 A→G intergenic (‑280/‑379) wza ← / → yegH polysaccharide export protein Wza/TerC family protein
RA 2,174,381 T→G C270G (TGC→GGC)  yegU → ADP‑ribosylglycohydrolase family protein
RA 2,176,805 T→G D109A (GAC→GCC)  yegX ← glycoside hydrolase family 25 protein
RA 2,196,055 T→C V766V (GTT→GTC BW25113_RS11045 → DUF4132 domain‑containing protein
RA 2,202,171 G→C W242C (TGG→TGC yehP → VWA domain‑containing protein
RA 2,220,044 A→G S236P (TCG→CCG)  yohF ← SDR family oxidoreductase
RA 2,229,956 A→G K405E (AAA→GAA)  preA → NAD‑dependent dihydropyrimidine dehydrogenase subunit PreA
RA 2,283,874 Δ1 bp intergenic (‑350/‑105) BW25113_RS11435 ← / → narP IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP
RA 2,284,519 T→C S181P (TCC→CCC)  narP → nitrate/nitrite response regulator protein NarP
RA 2,345,414 T→G H147P (CAC→CCC)  glpT ← glycerol‑3‑phosphate transporter
RA 2,396,099 G→C A413G (GCC→GGC)  nuoC ← NADH‑quinone oxidoreductase subunit C/D
MC JC 2,399,465 Δ7 bp coding (650‑656/939 nt) lrhA ← transcriptional regulator LrhA
RA 2,410,868 A→T G103G (GGA→GGT yfcC → putative basic amino acid antiporter YfcC
RA 2,414,135 T→C G12G (GGT→GGC yfcG → GSH‑dependent disulfide bond oxidoreductase
RA 2,425,778 T→C E215G (GAA→GGA)  folC ← bifunctional tetrahydrofolate synthase/dihydrofolate synthase
RA 2,435,707 C→G G155G (GGC→GGG mnmC → bifunctional tRNA (5‑methylaminomethyl‑2‑thiouridine)(34)‑methyltransferase MnmD/FAD‑dependent 5‑carboxymethylaminomethyl‑2‑thiouridine(34) oxidoreductase MnmC
RA 2,439,101 T→C K255E (AAG→GAG)  mepA ← penicillin‑insensitive murein endopeptidase
RA 2,505,777 T→C I137V (ATC→GTC)  mntH ← Nramp family divalent metal transporter
RA 2,526,050 A→G T95A (ACC→GCC)  cysK → cysteine synthase A
RA 2,536,106 T→C E261G (GAA→GGA)  cysP ← thiosulfate/sulfate ABC transporter substrate‑binding protein CysP
RA 2,554,121 A→C N169T (AAC→ACC)  BW25113_RS12740 → hypothetical protein
RA 2,623,127 (T)5→4 intergenic (+287/‑24) yfgG → / → yfgH YfgG family protein/glycine zipper 2TM domain‑containing protein
RA 2,661,508 T→G T250P (ACC→CCC)  hcaR ← DNA‑binding transcriptional regulator HcaR
RA 2,678,723 A→C G48G (GGT→GGG glyA ← serine hydroxymethyltransferase
RA 2,713,233 (A)5→4 coding (652/699 nt) tapT → tRNA‑uridine aminocarboxypropyltransferase
RA 2,725,700 T→G K611N (AAA→AAC clpB ← ATP‑dependent chaperone ClpB
RA 2,726,562 (T)5→4 coding (971/2574 nt) clpB ← ATP‑dependent chaperone ClpB
RA 2,751,237 A→G V241V (GTT→GTC BW25113_RS13685 ← hypothetical protein
RA 2,753,169 T→C S276P (TCA→CCA)  yfjI → YfjI family protein
RA 2,778,934 (T)6→5 intergenic (‑564/+187) BW25113_RS25705 ← / ← BW25113_RS13825 DUF5507 domain‑containing protein/tRNA‑Ile
RA 2,801,112 A→C T208P (ACC→CCC)  proX → glycine betaine/L‑proline ABC transporter substrate‑binding protein ProX
RA 2,818,451 T→C E162G (GAA→GGA)  mltB ← lytic murein transglycosylase B
RA 2,819,095 T→C intergenic (‑160/‑96) mltB ← / → srlA lytic murein transglycosylase B/PTS glucitol/sorbitol transporter subunit IIC
RA 2,849,315 A→C Y540S (TAC→TCC)  flhA → formate hydrogenlyase transcriptional activator FlhA
RA 2,849,816 T→C E117G (GAA→GGA)  ygbA ← nitrous oxide‑stimulated promoter family protein
RA 2,859,998 T→C I305V (ATT→GTT)  rpoS ← RNA polymerase sigma factor RpoS
RA 2,882,413 A→C V349G (GTT→GGT)  cysI ← assimilatory sulfite reductase (NADPH) hemoprotein subunit
RA 2,888,711 A→G V143A (GTC→GCC)  ygcQ ← electron transfer flavoprotein subunit alpha/FixB family protein
RA 2,982,555 T→C F232S (TTC→TCC)  yqeI → transcriptional regulator
RA 3,011,010 A→G E531G (GAA→GGA)  ygfK → putative selenate reductase subunit YgfK
RA 3,085,073 G→C G194A (GGC→GCC)  rsmE → 16S rRNA (uracil(1498)‑N(3))‑methyltransferase
RA 3,098,336 Δ1 bp coding (545/1080 nt) mltC → membrane‑bound lytic murein transglycosylase MltC
RA 3,103,871 (A)7→6 intergenic (+71/+78) BW25113_RS15410 → / ← yghD tRNA‑Phe/GspM family type II secretion system protein YghD
RA 3,248,409 A→C K3T (AAA→ACA)  BW25113_RS16135 → hypothetical protein
RA 3,273,721 A→G E49G (GAA→GGA)  agaV → PTS N‑acetylgalactosamine transporter subunit IIB
RA 3,275,191 T→G intergenic (+207/‑144) BW25113_RS16255 → / → agaS amidohydrolase family protein/AgaS family sugar isomerase
RA 3,356,378 (A)8→7 coding (213/2382 nt) yhcD → fimbrial biogenesis outer membrane usher protein
RA 3,458,386 A→G E369G (GAA→GGA)  gspL → type II secretion system protein GspL
RA 3,475,701 T→C S352P (TCG→CCG)  yheS → ABC transporter ATP‑binding protein
RA 3,535,339 T→C F525S (TTC→TCC)  feoB → Fe(2+) transporter permease subunit FeoB
RA 3,576,634 A→G R79R (CGA→CGG BW25113_RS17825 → YrhA family protein
RA 3,579,168 T→C E339G (GAA→GGA)  ggt ← gamma‑glutamyltransferase
RA 3,597,860 C→T T36T (ACC→ACT rsmD → 16S rRNA (guanine(966)‑N(2))‑methyltransferase
RA 3,679,062 A→C *1158E (TAA→GAA)  bcsC ← cellulose synthase complex outer membrane protein BcsC
RA 3,681,554 (T)5→4 coding (980/3474 nt) bcsC ← cellulose synthase complex outer membrane protein BcsC
RA 3,717,969 T→C E237G (GAA→GGA)  glyQ ← glycine‑‑tRNA ligase subunit alpha
RA 3,786,467 T→C I193V (ATT→GTT)  yibB ← protein YibB
RA 3,786,991 T→C D18G (GAT→GGT)  yibB ← protein YibB
RA 3,791,182 A→C Y292S (TAC→TCC)  waaL → O‑antigen ligase
RA 3,836,838 (C)5→4 coding (312/1335 nt) adeQ ← adenine permease AdeQ
RA 3,896,621 A→G D147D (GAT→GAC bglB ← 6‑phospho‑beta‑glucosidase BglB
RA 3,898,828 (T)5→4 coding (130/1878 nt) bglF ← PTS beta‑glucoside transporter subunit IIABC
RA 3,922,863 A→G V34A (GTC→GCC)  viaA ← ATPase RavA stimulator ViaA
RA 4,004,326 T→G V256G (GTG→GGG)  yigL → sugar/pyridoxal phosphate phosphatase YigL
RA 4,073,163 A→T D26V (GAT→GTT)  BW25113_RS20185 → hypothetical protein
RA 4,084,653 A→G G358G (GGT→GGC frvB ← PTS fructose‑like transporter subunit IIBC
RA 4,117,071 T→C F44S (TTC→TCC)  rpmE → 50S ribosomal protein L31
RA 4,153,816 T→C S84P (TCA→CCA)  btuB → TonB‑dependent vitamin B12 receptor BtuB
RA 4,165,187 (A)5→4 intergenic (‑233/‑129) coaA ← / → BW25113_RS20630 type I pantothenate kinase/tRNA‑Thr
RA 4,180,586 (A)7→6 intergenic (+333/+77) yjaZ → / ← thiH heat‑shock protein C/2‑iminoacetate synthase ThiH
RA 4,211,170 (T)8→7 coding (1246/2187 nt) espL4 ← type III secretion system effector EspL4
RA 4,215,724 T→G W657G (TGG→GGG)  metH → methionine synthase
RA 4,306,692 A→T I115N (ATC→AAC)  phnM ← alpha‑D‑ribose 1‑methylphosphonate 5‑triphosphate diphosphatase
RA 4,336,254 T→G D297A (GAC→GCC)  fumB ← class I fumarate hydratase
RA 4,367,563 T→C intergenic (‑24/+65) blc ← / ← ampC lipocalin Blc/BlaEC family class C beta‑lactamase
RA 4,421,635 C→G A56P (GCA→CCA)  ytfE ← iron‑sulfur cluster repair protein YtfE
RA 4,484,479 A→G S14G (AGT→GGT)  idnK → gluconokinase
RA 4,494,539 T→C F222S (TTC→TCC)  nanX → MFS transporter
RA 4,500,063 T→G intergenic (+113/+444) BW25113_RS25830 → / ← fecE hypothetical protein/Fe(3+) dicitrate ABC transporter ATP‑binding protein FecE
RA 4,527,151 T→C Q87Q (CAA→CAG nanS ← 9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase
RA 4,543,103 A→G E129G (GAA→GGA)  uxuB → fructuronate reductase
RA 4,593,447 T→C S52P (TCC→CCC)  yjjQ → response regulator transcription factor
RA 4,629,389 (T)8→7 intergenic (+42/+18) creD → / ← arcA cell envelope integrity protein CreD/two‑component system response regulator ArcA

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ NZ_CP009273 356977 357574 598 2 [1] [0] 2 [lacA] [lacA]
* * ÷ NZ_CP009273 428493 428555 63 2 [1] [1] 2 nrdR transcriptional regulator NrdR
* * ÷ NZ_CP009273 692135 692158 24 2 [1] [1] 2 BW25113_RS03450 tRNA‑Met
* * ÷ NZ_CP009273 712149 712164 16 2 [1] [0] 2 BW25113_RS03565/BW25113_RS03570 DUF2625 domain‑containing protein/winged helix‑turn‑helix domain‑containing protein
* * ÷ NZ_CP009273 712826 712844 19 2 [0] [1] 2 potE putrescine‑ornithine antiporter
* * ÷ NZ_CP009273 725084 725105 22 2 [1] [1] 2 rhsC rhs element protein RhsC
* * ÷ NZ_CP009273 763355 763373 19 2 [1] [1] 2 mngA PTS 2‑O‑a‑mannosyl‑D‑glycerate transporter subunit IIABC
* * ÷ NZ_CP009273 763916 763995 80 2 [1] [0] 3 mngB mannosylglycerate hydrolase
* * ÷ NZ_CP009273 766733 766753 21 2 [1] [1] 3 mngB/cydA mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I
* * ÷ NZ_CP009273 772574 772584 11 2 [0] [1] 2 tolA cell envelope integrity protein TolA
* * ÷ NZ_CP009273 784781 784798 18 2 [1] [1] 3 galK galactokinase
* * ÷ NZ_CP009273 805652 805703 52 2 [1] [1] 2 bioB biotin synthase BioB
* * ÷ NZ_CP009273 806006 806087 82 2 [1] [1] 3 bioF 8‑amino‑7‑oxononanoate synthase
* * ÷ NZ_CP009273 806374 806421 48 2 [1] [1] 2 bioF 8‑amino‑7‑oxononanoate synthase
* * ÷ NZ_CP009273 807681 807740 60 2 [1] [0] 3 [bioC]–[bioD] [bioC],[bioD]
* * ÷ NZ_CP009273 861882 861923 42 4 [1] [1] 2 moeA/iaaA molybdopterin molybdotransferase MoeA/beta‑aspartyl‑peptidase
* * ÷ NZ_CP009273 880664 880701 38 2 [0] [1] 2 [BW25113_RS04375] [BW25113_RS04375]
* * ÷ NZ_CP009273 881365 881372 8 3 [0] [1] 2 ybjI 5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase
* * ÷ NZ_CP009273 902995 903057 63 2 [1] [1] 2 ybjT SDR family oxidoreductase
* * ÷ NZ_CP009273 916472 916541 70 2 [1] [1] 5 macB macrolide ABC transporter ATP‑binding protein/permease MacB
* * ÷ NZ_CP009273 934677 934702 26 2 [1] [1] 2 rarA replication‑associated recombination protein RarA
* * ÷ NZ_CP009273 968746 968787 42 2 [1] [1] 3 elyC envelope biogenesis factor ElyC
* * ÷ NZ_CP009273 970157 970177 21 2 [0] [0] 3 mukF chromosome partition protein MukF
* * ÷ NZ_CP009273 970391 970445 55 2 [1] [1] 3 mukF chromosome partition protein MukF
* * ÷ NZ_CP009273 988008 988059 52 2 [1] [1] 2 pepN aminopeptidase N
* * ÷ NZ_CP009273 1017025 1017063 39 2 [0] [1] 2 sxy CRP‑S regulon transcriptional coactivator Sxy
* * ÷ NZ_CP009273 1024403 1024477 75 3 [0] [1] 3 rlmI 23S rRNA (cytosine(1962)‑C(5))‑methyltransferase RlmI
* * ÷ NZ_CP009273 1041705 1041735 31 3 [1] [1] 2 gfcD YjbH domain‑containing protein
* * ÷ NZ_CP009273 1044436 1044457 22 2 [0] [1] 2 gfcB lipoprotein GfcB
* * ÷ NZ_CP009273 1094788 1094827 40 2 [1] [1] 2 ycdX zinc‑binding phosphatase
* * ÷ NZ_CP009273 1098860 1098882 23 2 [0] [1] 2 csgD/csgB biofilm master transcriptional regulator CsgD/curli minor subunit CsgB
* * ÷ NZ_CP009273 1101424 1101450 27 2 [1] [1] 2 ymdB O‑acetyl‑ADP‑ribose deacetylase
* * ÷ NZ_CP009273 1129468 1129497 30 2 [1] [1] 2 flgF flagellar basal‑body rod protein FlgF
* * ÷ NZ_CP009273 1135272 1135321 50 3 [1] [0] 3 flgK flagellar hook‑associated protein FlgK
* * ÷ NZ_CP009273 1158182 1158238 57 2 [1] [1] 2 lpoB penicillin‑binding protein activator LpoB
* * ÷ NZ_CP009273 1164381 1164434 54 2 [0] [1] 2 comR/bhsA TetR family copper‑responsive transcriptional repressor ComR/multiple stress resistance protein BhsA
* * ÷ NZ_CP009273 1168267 1168330 64 2 [1] [1] 2 mfd transcription‑repair coupling factor
* * ÷ NZ_CP009273 1187844 1187911 68 3 [1] [1] 2 hflD high frequency lysogenization protein HflD
* * ÷ NZ_CP009273 1193090 1193204 115 2 [0] [1] 3 BW25113_RS05920 hypothetical protein
* * ÷ NZ_CP009273 1200223 1200249 27 2 [1] [1] 3 BW25113_RS05965 terminase large subunit
* * ÷ NZ_CP009273 1216668 1216680 13 2 [1] [1] 3 BW25113_RS25990 autotransporter outer membrane beta‑barrel domain‑containing protein
* * ÷ NZ_CP009273 1219342 1219352 11 2 [1] [0] 2 BW25113_RS06105 autotransporter outer membrane beta‑barrel domain‑containing protein
* * ÷ NZ_CP009273 1219996 1220011 16 2 [0] [1] 2 [minE]–[minD] [minE],[minD]
* * ÷ NZ_CP009273 1222986 1223012 27 2 [1] [1] 2 pliG/BW25113_RS06140 PPC domain‑containing protein/YcgL domain‑containing protein
* * ÷ NZ_CP009273 1235127 1235140 14 2 [0] [0] 2 dadX catabolic alanine racemase DadX
* * ÷ NZ_CP009273 1239621 1239666 46 2 [1] [1] 3 ycgR flagellar brake protein
* * ÷ NZ_CP009273 1241233 1241279 47 2 [1] [0] 3 treA alpha,alpha‑trehalase
* * ÷ NZ_CP009273 1244859 1244899 41 2 [0] [1] 2 dhaL dihydroxyacetone kinase subunit DhaL
* * ÷ NZ_CP009273 1247245 1247317 73 3 [1] [1] 2 dhaR dihydroxyacetone kinase operon transcriptional regulator DhaR
* * ÷ NZ_CP009273 1250407 1250425 19 2 [0] [1] 2 ycgV autotransporter outer membrane beta‑barrel domain‑containing protein
* * ÷ NZ_CP009273 1253687 1253731 45 2 [1] [1] 3 pth aminoacyl‑tRNA hydrolase
* * ÷ NZ_CP009273 1276484 1276510 27 3 [1] [1] 2 narG nitrate reductase subunit alpha
* * ÷ NZ_CP009273 1282345 1282372 28 2 [1] [1] 2 BW25113_RS23090 RtT sRNA
* * ÷ NZ_CP009273 1288547 1288556 10 2 [1] [1] 2 hns/tdk DNA‑binding transcriptional regulator H‑NS/thymidine kinase
* * ÷ NZ_CP009273 1295081 1295093 13 2 [1] [0] 2 BW25113_RS25865 hypothetical protein
* * ÷ NZ_CP009273 1298493 1298517 25 2 [0] [1] 2 oppC oligopeptide ABC transporter permease OppC
* * ÷ NZ_CP009273 1299155 1299178 24 2 [1] [1] 2 oppD murein tripeptide/oligopeptide ABC transporter ATP‑binding protein OppD
* * ÷ NZ_CP009273 1307209 1307230 22 2 [1] [1] 3 yciC YciC family protein
* * ÷ NZ_CP009273 1310141 1310175 35 3 [1] [1] 2 yciG general stress protein
* * ÷ NZ_CP009273 1312979 1313019 41 3 [1] [0] 2 trpCF bifunctional indole‑3‑glycerol‑phosphate synthase TrpC/phosphoribosylanthranilate isomerase TrpF
* * ÷ NZ_CP009273 1316009 1316020 12 3 [0] [1] 2 trpE anthranilate synthase component I
* * ÷ NZ_CP009273 1321167 1321251 85 2 [1] [0] 2 rluB 23S rRNA pseudouridine(2605) synthase RluB
* * ÷ NZ_CP009273 1322835 1322839 5 2 [0] [0] 2 yciK YciK family oxidoreductase
* * ÷ NZ_CP009273 1326016 1326067 52 2 [1] [1] 2 topA type I DNA topoisomerase
* * ÷ NZ_CP009273 1327235 1327283 49 2 [1] [1] 2 topA type I DNA topoisomerase
* * ÷ NZ_CP009273 1341852 1341915 64 2 [1] [0] 2 rnb exoribonuclease II
* * ÷ NZ_CP009273 1346814 1346845 32 2 [1] [0] 3 sapF peptide ABC transporter ATP‑binding protein SapF
* * ÷ NZ_CP009273 1369403 1369430 28 2 [1] [1] 2 ycjQ zinc‑binding alcohol dehydrogenase
* * ÷ NZ_CP009273 1387897 1387924 28 2 [1] [1] 3 mppA murein tripeptide ABC transporter substrate‑binding protein MppA
* * ÷ NZ_CP009273 1416905 1416915 11 2 [1] [1] 2 ydaV ATP‑binding protein
* * ÷ NZ_CP009273 1417343 1417375 33 2 [0] [1] 2 BW25113_RS07140 DUF1627 domain‑containing protein
* * ÷ NZ_CP009273 1417509 1417573 65 3 [1] [1] 3 BW25113_RS07140/rzoD DUF1627 domain‑containing protein/prophage lysis lipoprotein RzoD
* * ÷ NZ_CP009273 1448162 1448231 70 2 [1] [1] 3 [paaA] [paaA]
* * ÷ NZ_CP009273 1452161 1452189 29 2 [1] [1] 2 paaF 2,3‑dehydroadipyl‑CoA hydratase
* * ÷ NZ_CP009273 1459471 1459516 46 2 [1] [1] 2 [BW25113_RS25580] [BW25113_RS25580]
* * ÷ NZ_CP009273 1483571 1483574 4 3 [1] [0] 3 aldA aldehyde dehydrogenase
* * ÷ NZ_CP009273 1518946 1518979 34 2 [1] [1] 2 ansP L‑asparagine permease
* * ÷ NZ_CP009273 1561968 1562000 33 2 [1] [0] 2 digH glycoside hydrolase family 10 protein
* * ÷ NZ_CP009273 1566576 1566615 40 2 [1] [1] 2 gadB/pqqL glutamate decarboxylase/insulinase family protein
* * ÷ NZ_CP009273 1596033 1596060 28 2 [0] [1] 3 lsrA autoinducer 2 ABC transporter ATP‑binding protein LsrA
* * ÷ NZ_CP009273 1641412 1641488 77 2 [1] [1] 2 [BW25113_RS23105] [BW25113_RS23105]
* * ÷ NZ_CP009273 1684176 1684186 11 3 [1] [1] 4 ydgA YdgA family protein
* * ÷ NZ_CP009273 1706505 1706531 27 2 [0] [1] 3 nth/dtpA endonuclease III/dipeptide/tripeptide permease DtpA
* * ÷ NZ_CP009273 1731583 1731615 33 2 [1] [0] 2 ydhP/ynhF MFS transporter/cytochrome bd‑I accessory subunit CydH
* * ÷ NZ_CP009273 1791547 1791591 45 2 [1] [1] 2 pheT phenylalanine‑‑tRNA ligase subunit beta
* * ÷ NZ_CP009273 1972752 1972775 24 18 [0] [1] 2 flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
* * ÷ NZ_CP009273 1974580 1974590 11 2 [0] [1] 2 otsA alpha,alpha‑trehalose‑phosphate synthase
* * ÷ NZ_CP009273 2006477 2006486 10 3 [1] [1] 2 fliE flagellar hook‑basal body complex protein FliE
* * ÷ NZ_CP009273 2062030 2062127 98 2 [1] [1] 2 [BW25113_RS24005] [BW25113_RS24005]
* * ÷ NZ_CP009273 2072004 2072015 12 2 [1] [0] 3 BW25113_RS25930/BW25113_RS24015 hypothetical protein/transposase domain‑containing protein
* * ÷ NZ_CP009273 2113998 2114025 28 2 [1] [1] 4 wcaJ UDP‑glucose‑‑undecaprenyl‑phosphate glucose‑1‑phosphate transferase
* * ÷ NZ_CP009273 2135429 2135447 19 2 [1] [1] 2 dcd dCTP deaminase
* * ÷ NZ_CP009273 2142695 2142702 8 3 [0] [1] 2 yegI protein kinase YegI
* * ÷ NZ_CP009273 2149196 2149241 46 3 [1] [1] 2 mdtB multidrug efflux RND transporter permease subunit MdtB
* * ÷ NZ_CP009273 2174310 2174339 30 4 [0] [1] 3 yegU ADP‑ribosylglycohydrolase family protein
* * ÷ NZ_CP009273 2203796 2203832 37 2 [1] [1] 2 yehQ C69 family dipeptidase
* * ÷ NZ_CP009273 2218296 2218312 17 2 [1] [0] 2 pbpG D‑alanyl‑D‑alanine endopeptidase
* * ÷ NZ_CP009273 2297653 2297669 17 3 [0] [0] 2 eco serine protease inhibitor ecotin
* * ÷ NZ_CP009273 2327167 2327177 11 2 [1] [0] 2 BW25113_RS11635 alpha‑2‑macroglobulin family protein
* * ÷ NZ_CP009273 2368134 2368204 71 2 [0] [1] 2 menE o‑succinylbenzoate‑‑CoA ligase
* * ÷ NZ_CP009273 2370937 2370947 11 2 [0] [1] 3 menH 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase
* * ÷ NZ_CP009273 2371264 2371309 46 2 [1] [1] 2 menD 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase
* * ÷ NZ_CP009273 2440483 2440541 59 2 [1] [1] 2 aroC chorismate synthase
* * ÷ NZ_CP009273 2505244 2505318 75 2 [0] [1] 2 mntH Nramp family divalent metal transporter
* * ÷ NZ_CP009273 2730449 2730471 23 2 [1] [0] 2 bamD/raiA outer membrane protein assembly factor BamD/ribosome‑associated translation inhibitor RaiA
* * ÷ NZ_CP009273 2961087 2961106 20 3 [1] [0] 3 ptsP phosphoenolpyruvate‑‑protein phosphotransferase
* * ÷ NZ_CP009273 3792559 3792620 62 2 [1] [1] 2 waaU glycosyltransferase family 9 protein

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NZ_CP009273 360104 =NA (NA)30 (2.130) 16/168 0.1 71.4% intergenic (‑35/+251) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
?NZ_CP009273 = 360286 12 (0.850)intergenic (‑217/+69) lacZ/BW25113_RS23320 beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein
* ? NZ_CP009273 1203246 =9 (0.640)6 (0.530) 6/136 0.5 53.8% coding (290/630 nt) BW25113_RS05990 hypothetical protein
?NZ_CP009273 1205075 = 3 (0.260)coding (40/540 nt) BW25113_RS06005 phage tail protein
* ? NZ_CP009273 = 19727510 (0.000)18 (1.280) 17/168 0.1 100% intergenic (‑297/‑483) flhD/uspC flagellar transcriptional regulator FlhD/universal stress protein UspC
?NZ_CP009273 = 2283592 NA (NA)intergenic (‑68/‑387) BW25113_RS11435/narP IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP
* ? NZ_CP009273 4532499 =9 (0.640)4 (0.320) 4/150 0.8 31.9% intergenic (+49/‑433) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA
?NZ_CP009273 4532813 = 9 (0.720)intergenic (+363/‑119) fimE/fimA type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA