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

Predicted mutations
evidence position mutation freq annotation gene description
RA 57,344 T→A 28.6% intergenic (‑235/‑20) lptD ← / → djlA LPS assembly OM complex LptDE, beta‑barrel component/membrane‑anchored DnaK co‑chaperone, DNA‑binding protein
RA 481,170 A→G 100% intergenic (‑95/‑47) acrA ← / → acrR multidrug efflux system/transcriptional repressor
RA 879,076 G→T 100% intergenic (‑232/‑53) ybjG ← / → mdfA undecaprenyl pyrophosphate phosphatase/multidrug efflux system protein
RA 1,170,443 G→T 18.2% P60Q (CCG→CAG)  ycfT ← inner membrane protein
MC JC 1,613,357 Δ20 bp 100% intergenic (‑192/‑1) marC ← / → marR UPF0056 family inner membrane protein/transcriptional repressor of multiple antibiotic resistance
RA 1,663,222 G→T 21.0% L210I (CTC→ATC)  ynfL ← LysR family putative transcriptional regulator
RA 2,416,443 G→T 16.7% V192V (GTC→GTA)  yfcI ← transposase_31 family protein
RA 2,650,556 G→T 21.4% A580D (GCC→GAC)  hscA ← DnaK‑like molecular chaperone specific for IscU
RA 3,348,674 C→A 12.5% R197R (CGC→CGA)  gltB → glutamate synthase, large subunit
RA 3,390,856 C→A 12.2% G100V (GGG→GTG)  rng ← ribonuclease G
RA 3,840,764 C→A 23.9% W407C (TGG→TGT)  uhpC ← membrane protein regulates uhpT expression
JC 3,915,133 Δ4 bp 100% coding (276‑279/816 nt) atpB ← F0 sector of membrane‑bound ATP synthase, subunit a
RA 4,179,242 C→T 100% A1322V (GCG→GTG)  rpoC → RNA polymerase, beta prime subunit
RA 4,265,386 G→T 18.3% intergenic (‑417/‑13) yjcB ← / → yjcC putative inner membrane protein/putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase
RA 4,320,875 T→C 20.9% I186T (ATT→ACT)  proP → proline/glycine betaine transporter
RA 4,512,223 G→T 16.8% T563T (ACC→ACA)  yjhG ← putative dehydratase

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ CP009273 80510 80593 84 2 [1] [1] 3 leuL/leuO leu operon leader peptide/global transcription factor
* * ÷ CP009273 81830 81846 17 2 [0] [1] 2 leuO/ilvI global transcription factor/acetolactate synthase 3 large subunit
* * ÷ CP009273 81883 81897 15 2 [1] [1] 2 leuO/ilvI global transcription factor/acetolactate synthase 3 large subunit
* * ÷ CP009273 153562 153616 55 2 [1] [1] 2 yadN/folK putative fimbrial‑like adhesin protein/2‑amino‑4‑hydroxy‑6‑hydroxymethyldihyropteridine pyrophosphokinase
* * ÷ CP009273 153681 153697 17 2 [1] [1] 2 yadN/folK putative fimbrial‑like adhesin protein/2‑amino‑4‑hydroxy‑6‑hydroxymethyldihyropteridine pyrophosphokinase
* * ÷ CP009273 233663 233762 100 2 [1] [1] 3 aspV/yafT tRNA‑Asp/lipoprotein
* * ÷ CP009273 234686 234721 36 2 [0] [1] 2 yafT/ykfM lipoprotein/lethality reduction protein, putative inner membrane protein
* * ÷ CP009273 262744 262755 12 2 [0] [0] 2 ykfK/yafZ CP4‑6 prophage; putative DNA‑binding transcriptional regulator;Phage or Prophage Related/CP4‑6 prophage; conserved protein
* * ÷ CP009273 295808 295810 3 2 [0] [1] 2 paoC PaoABC aldehyde oxidoreductase, Moco‑containing subunit
* * ÷ CP009273 344390 344406 17 2 [1] [1] 4 [prpB] [prpB]
* * ÷ CP009273 380291 380321 31 2 [1] [1] 2 yaiS/tauA putative PIG‑L family deacetylase/taurine transporter subunit
* * ÷ CP009273 385289 385382 94 2 [1] [1] 2 hemB/yaiT 5‑aminolevulinate dehydratase (porphobilinogen synthase)/pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein
* * ÷ CP009273 396653 396685 33 2 [1] [1] 2 ddlA/iraP D‑alanine‑D‑alanine ligase A/anti‑RssB factor, RpoS stabilzer during Pi starvation; anti‑adapter protein
* * ÷ CP009273 476545 476581 37 2 [1] [1] 2 tomB/acrB Hha toxicity attenuator; conjugation‑related protein/multidrug efflux system protein
* * ÷ CP009273 518577 518592 16 2 [0] [1] 2 ybbP/rhsD putative ABC transporter permease/Rhs family putative polymorphic toxin
* * ÷ CP009273 518638 518684 47 2 [1] [1] 2 ybbP/rhsD putative ABC transporter permease/Rhs family putative polymorphic toxin
* * ÷ CP009273 522911 522946 36 2 [1] [1] 2 rhsD Rhs family putative polymorphic toxin
* * ÷ CP009273 523013 523028 16 2 [1] [1] 2 rhsD/ybbC Rhs family putative polymorphic toxin/putative immunity protein
* * ÷ CP009273 523131 523146 16 2 [1] [1] 2 ybbC putative immunity protein
* * ÷ CP009273 524155 524195 41 2 [1] [1] 2 ybbD pseudogene
* * ÷ CP009273 532997 533088 92 2 [1] [1] 2 glxR/ybbW tartronate semialdehyde reductase, NADH‑dependent/putative allantoin transporter
* * ÷ CP009273 558047 558086 40 2 [1] [1] 4 sfmH FimA homolog
* * ÷ CP009273 564439 564470 32 2 [1] [1] 2 ybcK DLP12 prophage; putative recombinase
* * ÷ CP009273 569773 569800 28 2 [1] [1] 3 [quuD] [quuD]
* * ÷ CP009273 578843 578881 39 2 [1] [1] 2 tfaX/appY pseudogene, DLP12 prophage;Phage or Prophage Related/global transcriptional activator; DLP12 prophage
* * ÷ CP009273 579058 579073 16 2 [1] [1] 2 tfaX/appY pseudogene, DLP12 prophage;Phage or Prophage Related/global transcriptional activator; DLP12 prophage
* * ÷ CP009273 579529 579571 43 2 [1] [1] 2 appY global transcriptional activator; DLP12 prophage
* * ÷ CP009273 632214 632249 36 2 [1] [1] 2 ybdO putative DNA‑binding transcriptional regulator
* * ÷ CP009273 647491 647669 179 2 [1] [1] 2 citC/citA [citrate [pro‑3S]‑lyase] ligase/sensory histidine kinase in two‑component regulatory system with CitB
* * ÷ CP009273 716386 716531 146 2 [1] [1] 2 [kdpE] [kdpE]
* * ÷ CP009273 733508–733519 733584 66–77 2 [1] [1] 2 [ybfD] [ybfD]
* * ÷ CP009273 748400 748422 23 2 [1] [1] 2 ybgD/gltA putative fimbrial‑like adhesin protein/citrate synthase
* * ÷ CP009273 748521 748537 17 2 [1] [0] 5 ybgD/gltA putative fimbrial‑like adhesin protein/citrate synthase
* * ÷ CP009273 750320 750353 34 2 [1] [1] 2 gltA/sdhC citrate synthase/succinate dehydrogenase, membrane subunit, binds cytochrome b556
* * ÷ CP009273 761387 761402 16 2 [1] [1] 2 mngR/mngA Transcriptional repressor for the mannosyl‑D‑glycerate catabolic operon/fused 2‑O‑a‑mannosyl‑D‑glycerate specific PTS enzymes: IIA component/IIB component/IIC component
* * ÷ CP009273 772689 772699 11 2 [1] [1] 2 tolA membrane anchored protein in TolA‑TolQ‑TolR complex
* * ÷ CP009273 982713 982742 30 2 [1] [1] 2 ompF/asnS outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
* * ÷ CP009273 1098874 1099055 182 2 [1] [1] 2 csgD/csgB csgBAC operon transcriptional regulator/curlin nucleator protein, minor subunit in curli complex
* * ÷ CP009273 1114573 1114666 94 2 [1] [1] 2 yceJ/yceO putative cytochrome b561/uncharacterized protein
* * ÷ CP009273 1192975 1193098 124 2 [1] [1] 2 [ymfD]–[ymfE] [ymfD],[ymfE]
* * ÷ CP009273 1193148 1193252 105 2 [1] [1] 2 ymfE e14 prophage; putative inner membrane protein
* * ÷ CP009273 1206612 1206681 70 2 [1] [1] 2 [mcrA] [mcrA]
* * ÷ CP009273 1206759 1206785 27 2 [1] [1] 3 mcrA/icdC putative 5‑methylcytosine/5‑hydroxymethylcytosine‑specific restriction nuclease; 5‑methylcytosine DNA binding protein; e14 prophage gene/pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion
* * ÷ CP009273 1207082 1207133 52 2 [1] [1] 2 icdC/iraM pseudogene, isocitrate dehydrogenase C‑terminal gene fragment; idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor
* * ÷ CP009273 1207674 1207690 17 2 [0] [1] 2 iraM/ycgX RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein
* * ÷ CP009273 1207750 1207808 59 2 [1] [1] 2 iraM/ycgX RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein
* * ÷ CP009273 1208015 1208048 34 2 [1] [1] 2 iraM/ycgX RpoS stabilzer during Mg starvation, anti‑RssB factor/DUF1398 family protein
* * ÷ CP009273 1208088 1208176 89 2 [1] [1] 2 [ycgX] [ycgX]
* * ÷ CP009273 1208212 1208293 82 2 [1] [1] 2 ycgX DUF1398 family protein
* * ÷ CP009273 1209369 1209382 14 2 [1] [1] 2 bluR repressor of blue light‑responsive genes
* * ÷ CP009273 1209570 1209574 5 2 [0] [1] 2 bluR/bluF repressor of blue light‑responsive genes/anti‑repressor for YcgE, blue light‑responsive; FAD‑binding; has c‑di‑GMP phosphodiesterase‑like EAL domain, but does not degrade c‑di‑GMP
* * ÷ CP009273 1209629 1209668 40 2 [0] [1] 2 bluR/bluF repressor of blue light‑responsive genes/anti‑repressor for YcgE, blue light‑responsive; FAD‑binding; has c‑di‑GMP phosphodiesterase‑like EAL domain, but does not degrade c‑di‑GMP
* * ÷ CP009273 1211775 1211946 172 2 [1] [1] 2 [ymgA]–[ariR] [ymgA],[ariR]
* * ÷ CP009273 1211995 1212005 11 2 [1] [1] 2 ariR RcsB connector protein for regulation of biofilm and acid‑resistance
* * ÷ CP009273 1215811 1215852 42 2 [1] [1] 2 ycgH pseudogene; putative ATP‑binding component of a transport system
* * ÷ CP009273 1215899 1215915 17 2 [1] [1] 3 ycgH pseudogene; putative ATP‑binding component of a transport system
* * ÷ CP009273 1217641 1217667 27 2 [1] [0] 2 ycgH pseudogene; putative ATP‑binding component of a transport system
* * ÷ CP009273 1226091 1226109 19 2 [1] [1] 2 hlyE/umuD hemolysin E/DNA polymerase V, subunit D
* * ÷ CP009273 1232964 1232974 11 2 [1] [1] 2 ycgB/dadA SpoVR family stationary phase protein/D‑amino acid dehydrogenase
* * ÷ CP009273 1251354 1251427 74 2 [1] [1] 2 [ycgV] [ycgV]
* * ÷ CP009273 1251465 1251480 16 2 [1] [1] 2 ycgV/ychF putative adhesin/catalase inhibitor protein; ATPase, K+‑dependent, ribosome‑associated
* * ÷ CP009273 1275085 1275125 41 2 [1] [1] 2 narK/narG nitrate/nitrite transporter/nitrate reductase 1, alpha subunit
* * ÷ CP009273 1286846 1286863 18 2 [1] [1] 2 rssB/galU PcnB‑degradosome interaction factor; response regulator/glucose‑1‑phosphate uridylyltransferase
* * ÷ CP009273 1400079 1400100 22 2 [1] [1] 2 mcaS/smrA motility and biofilm regulator sRNA/DNA endonuclease
* * ÷ CP009273 1407732 1407747 16 2 [1] [1] 2 ydaQ/rcbA Rac prophage; conserved protein/double‑strand break reduction protein, Rac prophage
* * ÷ CP009273 1417981 1418050 70 2 [1] [1] 2 [trkG] [trkG]
* * ÷ CP009273 1428865 1428889 25 3 [1] [1] 2 ynaE/ttcC cold shock protein, Rac prophage/pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related
* * ÷ CP009273 1428921 1428929 9 2 [1] [1] 2 ynaE/ttcC cold shock protein, Rac prophage/pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related
* * ÷ CP009273 1440242 1440338 97 2 [0] [1] 2 ydbL DUF1318 family protein
* * ÷ CP009273 1459309 1459443 135 2 [1] [1] 2 [paaY]–[ynbG] [paaY],[ynbG]
* * ÷ CP009273 1459539 1459591 53 2 [1] [1] 2 ynbG/ydbA uncharacterized protein/pseudogene, autotransporter homolog; interrupted by IS2 and IS30
* * ÷ CP009273 1521513 1521566 54 2 [1] [1] 2 yncH/rhsE IPR020099 family protein/pseudogene, Rhs family protein
* * ÷ CP009273 1524289 1524320 32 2 [1] [1] 2 ydcD uncharacterized protein
* * ÷ CP009273 1524371 1524420 50 2 [1] [1] 2 ydcD uncharacterized protein
* * ÷ CP009273 1524455 1524470 16 2 [1] [1] 2 ydcD uncharacterized protein
* * ÷ CP009273 1524558 1524593 36 2 [1] [1] 2 ydcD uncharacterized protein
* * ÷ CP009273 1540358 1540449 92 2 [1] [1] 2 yddL/yddG putative lipoprotein;putative membrane; Not classified; putative outer membrane porin protein/aromatic amino acid exporter
* * ÷ CP009273 1546928 1546954 27 2 [1] [1] 2 [yddM] [yddM]
* * ÷ CP009273 1550725 1550739 15 2 [1] [1] 2 bdm/osmC biofilm‑dependent modulation protein/lipoyl‑dependent Cys‑based peroxidase, hydroperoxide resistance; salt‑shock inducible membrane protein; peroxiredoxin
* * ÷ CP009273 1566555 1566669 115 2 [1] [1] 2 [pqqL] [pqqL]
* * ÷ CP009273 1573669 1573701 33 2 [1] [1] 2 yddA/ydeM putative multidrug transporter subunit of ABC superfamily, membrane component/ATP‑binding component/putative YdeN‑specific sulfatase‑maturating enzyme
* * ÷ CP009273 1576958 1576992 35 2 [1] [1] 2 ydeN/ydeO putative Ser‑type periplasmic non‑aryl sulfatase/UV‑inducible global regulator, EvgA‑, GadE‑dependent
* * ÷ CP009273 1577034 1577107 74 2 [1] [1] 2 ydeN/ydeO putative Ser‑type periplasmic non‑aryl sulfatase/UV‑inducible global regulator, EvgA‑, GadE‑dependent
* * ÷ CP009273 1577951 1578003 53 2 [1] [1] 2 ydeO/safA UV‑inducible global regulator, EvgA‑, GadE‑dependent/two‑component system connector membrane protein, EvgSA to PhoQP
* * ÷ CP009273 1580797 1581001 205 2 [1] [1] 2 ydeP/ydeQ putative oxidoreductase/putative fimbrial‑like adhesin protein
* * ÷ CP009273 1581382 1581488 107 2 [1] [1] 2 ydeQ putative fimbrial‑like adhesin protein
* * ÷ CP009273 1592510 1592550 41 2 [1] [1] 2 yneO/lsrK pseudogene, AidA homolog/autoinducer‑2 (AI‑2) kinase
* * ÷ CP009273 1618831 1619005 175 2 [1] [1] 2 ydeI/ydeJ hydrogen peroxide resistance OB fold protein; putative periplasmic protein/inactive PncC family protein
* * ÷ CP009273 1630861 1630871 11 2 [0] [0] 2 nohQ/ynfO pseudogene, Qin prophage; Phage DNA packaging protein Nu1 family;Phage or Prophage Related; DNA packaging protein NU1 homolog from lambdoid prophage Qin/uncharacterized protein, Qin prophage
* * ÷ CP009273 1631447 1631467 21 2 [1] [1] 2 ydfO Qin prophage; uncharacterized protein
* * ÷ CP009273 1632556 1632571 16 2 [1] [1] 2 ynfN/cspI Qin prophage; cold shock‑induced protein/Qin prophage; cold shock protein
* * ÷ CP009273 1632699 1632707 9 2 [1] [0] 2 ynfN/cspI Qin prophage; cold shock‑induced protein/Qin prophage; cold shock protein
* * ÷ CP009273 1634231 1634300 70 2 [1] [1] 3 rrrQ Qin prophage; putative lysozyme
* * ÷ CP009273 1634947 1635019 73 2 [1] [1] 2 essQ/cspB Qin prophage; putative S lysis protein/Qin prophage; cold shock protein
* * ÷ CP009273 1641543 1641615 73 2 [1] [1] 2 [intK]–[ydfX] [intK],[ydfX]
* * ÷ CP009273 1652253 1652268 16 4 [1] [1] 2 ynfD/ynfE DUF1161 family periplasmic protein/putative selenate reductase, periplasmic
* * ÷ CP009273 1663906 1663913 8 2 [1] [0] 2 ynfL/ynfM LysR family putative transcriptional regulator/putative arabinose efflux transporter
* * ÷ CP009273 1668785 1668880 96 2 [1] [1] 2 tqsA pheromone AI‑2 transporter
* * ÷ CP009273 1684499 1684538 40 2 [0] [1] 2 ydgA DUF945 family protein
* * ÷ CP009273 1699160 1699177 18 2 [1] [1] 2 blr/cnu beta‑lactam resistance membrane protein; divisome‑associated protein/nucleoid‑associated oriC‑binding protein; H‑NS and StpA stabilizing factor
* * ÷ CP009273 1748936 1749041 106 2 [1] [1] 2 ydhY/ydhZ putative 4Fe‑4S ferridoxin‑type protein; FNR, Nar, NarP‑regulated protein; putative subunit of YdhYVWXUT oxidoreductase complex/uncharacterized protein
* * ÷ CP009273 1749636 1749652 17 2 [1] [1] 2 ydhZ/pykF uncharacterized protein/pyruvate kinase I
* * ÷ CP009273 1754425 1754431 7 2 [1] [1] 2 sufS cysteine desulfurase, stimulated by SufE; selenocysteine lyase, PLP‑dependent
* * ÷ CP009273 1772992 1773047 56 2 [1] [1] 2 ydiP putative DNA‑binding transcriptional regulator
* * ÷ CP009273 1782135 1782150 16 2 [1] [1] 2 ppsR bifunctional regulatory protein: PEP synthase kinase and PEP synthase pyrophosphorylase
* * ÷ CP009273 1783801 1783882 82 4 [1] [0] 2 [ydiE] [ydiE]
* * ÷ CP009273 1815427 1815455 29 2 [1] [1] 2 chbC N,N'‑diacetylchitobiose‑specific enzyme IIC component of PTS
* * ÷ CP009273 1888067 1888126 60 2 [1] [1] 2 yoaB/yoaC putative reactive intermediate deaminase/DUF1889 family protein
* * ÷ CP009273 1902204 1902308 105 3 [1] [0] 2 yobF/yebO DUF2527 family heat‑induced protein/putative inner membrane protein
* * ÷ CP009273 1973035 1973096 62 3 [0] [1] 2 flhD/uspC flagellar class II regulon transcriptional activator, with FlhC/universal stress protein
* * ÷ CP009273 1980198 1980232 35 2 [0] [1] 2 araF/ftnB L‑arabinose transporter subunit/ferritin B, putative ferrous iron reservoir
* * ÷ CP009273 2027052 2027115 64 2 [1] [0] 2 yedR/rseX inner membrane protein/sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent
* * ÷ CP009273 2027300 2027387 88 2 [1] [1] 2 rseX/yedS sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein
* * ÷ CP009273 2027419 2027450 32 2 [1] [1] 2 rseX/yedS sRNA antisense regulator of ompA and ompC translation, Hfq‑dependent/pseudogene, outer membrane protein homology; putative outer membrane protein
* * ÷ CP009273 2046805 2046830 26 2 [1] [1] 2 [yeeL] [yeeL]
* * ÷ CP009273 2050178 2050300 123 2 [1] [1] 2 amn/yeeN AMP nucleosidase/UPF0082 family protein
* * ÷ CP009273 2051091 2051146 56 2 [1] [1] 2 yeeN/asnW UPF0082 family protein/tRNA‑Asn
* * ÷ CP009273 2051189 2051304 116 2 [1] [1] 2 yeeN/asnW UPF0082 family protein/tRNA‑Asn
* * ÷ CP009273 2093142 2093203 62 2 [0] [1] 2 ugd/gnd UDP‑glucose 6‑dehydrogenase/6‑phosphogluconate dehydrogenase, decarboxylating
* * ÷ CP009273 2099411 2099416 6 2 [1] [0] 2 wbbI d‑Galf:alpha‑d‑Glc beta‑1,6‑galactofuranosyltransferase
* * ÷ CP009273 2099509 2099692 184 2 [1] [1] 2 [wbbI]–[wbbH] [wbbI],[wbbH]
* * ÷ CP009273 2100198 2100232 35 2 [1] [1] 2 wbbH O‑antigen polymerase
* * ÷ CP009273 2101591 2101615 25 2 [1] [1] 2 glf UDP‑galactopyranose mutase, FAD/NAD(P)‑binding
* * ÷ CP009273 2144472 2144515 44 2 [1] [1] 2 yegI/yegJ protein kinase‑related putative non‑specific DNA‑binding protein/uncharacterized protein
* * ÷ CP009273 2161731 2161776 46 2 [1] [1] 2 yegR uncharacterized protein
* * ÷ CP009273 2185828 2185904 77 2 [0] [1] 2 yehD/yehE putative fimbrial‑like adhesin protein/DUF2574 family protein
* * ÷ CP009273 2221027 2221042 16 2 [1] [1] 2 mdtQ pseudogene; putative channel/filament proteins
* * ÷ CP009273 2243104 2243171 68 2 [1] [1] 2 yeiE/yeiH putative DNA‑binding transcriptional regulator/UPF0324 family inner membrane protein
* * ÷ CP009273 2306457 2306511 55 2 [1] [1] 2 ompC/micF outer membrane porin protein C/sRNA antisense regulator affecting ompF expression, Hfq‑dependent
* * ÷ CP009273 2337803 2337860 58 2 [1] [1] 2 yfaL/nrdA adhesin/ribonucleoside‑diphosphate reductase 1, alpha subunit
* * ÷ CP009273 2379321 2379381 61 2 [1] [1] 2 [yfbL] [yfbL]
* * ÷ CP009273 2400586 2400631 46 2 [1] [1] 2 lrhA/alaA transcriptional repressor of flagellar, motility and chemotaxis genes/valine‑pyruvate aminotransferase 2
* * ÷ CP009273 2400853 2400873 21 2 [1] [1] 2 lrhA/alaA transcriptional repressor of flagellar, motility and chemotaxis genes/valine‑pyruvate aminotransferase 2
* * ÷ CP009273 2449334 2449428 95 2 [1] [1] 2 yfcV/sixA putative fimbrial‑like adhesin protein/phosphohistidine phosphatase
* * ÷ CP009273 2449574 2449589 16 2 [1] [1] 2 yfcV/sixA putative fimbrial‑like adhesin protein/phosphohistidine phosphatase
* * ÷ CP009273 2462622 2462650 29 2 [1] [1] 2 gtrS serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage
* * ÷ CP009273 2462881 2463000 120 2 [1] [1] 2 gtrS serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage
* * ÷ CP009273 2463613 2463740 128 2 [1] [1] 2 gtrS serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage
* * ÷ CP009273 2463867 2463930 64 3 [1] [0] 2 gtrS serotype‑specific glucosyl transferase, CPS‑53 (KpLE1) prophage
* * ÷ CP009273 2476742 2476825 84 2 [1] [1] 2 [emrK] [emrK]
* * ÷ CP009273 2479143 2479189 47 2 [1] [1] 2 evgS hybrid sensory histidine kinase in two‑component regulatory system with EvgA
* * ÷ CP009273 2479246 2479256 11 2 [1] [1] 2 evgS hybrid sensory histidine kinase in two‑component regulatory system with EvgA
* * ÷ CP009273 2486731 2486750 20 2 [1] [1] 2 [frc] [frc]
* * ÷ CP009273 2491960 2491986 27 2 [0] [1] 2 alaC/ypdA valine‑pyruvate aminotransferase 3/sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system
* * ÷ CP009273 2693356 2693368 13 2 [0] [0] 2 yfhL/shoB putative 4Fe‑4S cluster‑containing protein/toxic membrane protein
* * ÷ CP009273 2705408 2705433 26 2 [0] [1] 2 trmN tRNA1(Val) (adenine(37)‑N6)‑methyltransferase
* * ÷ CP009273 2767023 2767081 59 2 [1] [1] 2 yfjW CP4‑57 prophage; putative inner membrane protein
* * ÷ CP009273 2768272 2768298 27 2 [1] [1] 2 yfjW CP4‑57 prophage; putative inner membrane protein
* * ÷ CP009273 2768338 2768352 15 2 [1] [1] 2 yfjW CP4‑57 prophage; putative inner membrane protein
* * ÷ CP009273 2777860 2777912 53 2 [1] [1] 2 ypjC pseudogene
* * ÷ CP009273 2778095 2778105 11 2 [1] [1] 2 ypjC pseudogene
* * ÷ CP009273 2779381 2779450 70 10 [1] [1] 2 ileY/ygaQ tRNA‑Ile/uncharacterized protein; putative enzyme
* * ÷ CP009273 2781729 2781757 29 2 [0] [1] 2 ygaQ uncharacterized protein; putative enzyme
* * ÷ CP009273 2792009 2792021 13 2 [1] [1] 2 stpA/alaE DNA binding protein, nucleoid‑associated/alanine exporter, alanine‑inducible, stress‑responsive
* * ÷ CP009273 2897155 2897265 111 2 [1] [1] 3 ygcE/queE putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
* * ÷ CP009273 2897880 2897902 23 2 [1] [1] 2 ygcE/queE putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
* * ÷ CP009273 2898909 2899037 129 4 [1] [1] 2 [yqcG] [yqcG]
* * ÷ CP009273 2981744 2981790 47 2 [1] [1] 2 yqeH/yqeI putative LuxR family transcriptional regulator/putative transcriptional regulator
* * ÷ CP009273 2986269 2986295 27 3 [0] [1] 2 ygeH putative transcriptional regulator
* * ÷ CP009273 2987490 2987533 44 2 [1] [1] 2 pbl pseudogene, peptidoglycan‑binding enzyme family
* * ÷ CP009273 2988525 2988647 123 2 [1] [1] 2 ygeK/ygeN pseudogene; putative 2‑component transcriptional regulator/pseudogene
* * ÷ CP009273 3081387 3081439 53 2 [0] [1] 2 metK/galP S‑adenosylmethionine synthetase/D‑galactose transporter
* * ÷ CP009273 3129960 3129978 19 2 [1] [1] 2 pitB/gss phosphate transporter/fused glutathionylspermidine amidase/glutathionylspermidine synthetase
* * ÷ CP009273 3178618 3178755 138 2 [1] [1] 2 yqiC/ygiL BMFP family putative fusogenic protein/putative fimbrial‑like adhesin protein
* * ÷ CP009273 3246083 3246177 95 2 [1] [1] 2 yhaH/yhaI DUF805 family inner membrane protein/DUF805 family inner membrane protein
* * ÷ CP009273 3260662 3260805 144 2 [1] [1] 2 [tdcR] [tdcR]
* * ÷ CP009273 3262525 3262614 90 2 [1] [1] 3 yhaC pentapetide repeats‑related protein
* * ÷ CP009273 3277457 3277480 24 5 [1] [1] 2 kbaY/agaB tagatose 6‑phosphate aldolase 1, kbaY subunit/N‑acetylgalactosamine‑specific enzyme IIB component of PTS
* * ÷ CP009273 3354353 3354405 53 2 [1] [1] 3 gltD/gltF glutamate synthase, 4Fe‑4S protein, small subunit/periplasmic protein
* * ÷ CP009273 3368041 3368064 24 2 [1] [0] 2 nanR/dcuD transcriptional repressor of the nan operon, induced by sialic acid/putative transporter
* * ÷ CP009273 3505707 3505736 30 2 [1] [1] 2 yhfZ/trpS putative DNA‑binding transcriptional regulator/tryptophanyl‑tRNA synthetase
* * ÷ CP009273 3575084 3575189 106 2 [1] [1] 2 yhhY/yhhZ putative acetyltransferase/putative Hcp1 family polymorphic toxin protein; putative colicin‑like DNase/tRNase activity
* * ÷ CP009273 3575429 3575541 113 2 [1] [1] 3 yhhZ putative Hcp1 family polymorphic toxin protein; putative colicin‑like DNase/tRNase activity
* * ÷ CP009273 3591088 3591103 16 5 [1] [1] 2 livK/panM leucine transporter subunit/PanD autocleavage accelerator, panothenate synthesis
* * ÷ CP009273 3625533 3625564 32 2 [1] [1] 2 yhiJ DUF4049 family protein
* * ÷ CP009273 3647058 3647074 17 6 [0] [1] 2 [yhiS] [yhiS]
* * ÷ CP009273 3747879 3747898 20 2 [1] [1] 2 yiaW/aldB DUF3302 family inner membrane protein/aldehyde dehydrogenase B
* * ÷ CP009273 3755410 3755421 12 2 [1] [1] 2 yibF/rhsA glutathione S‑transferase homolog/Rhs family protein, putative polymorphic toxin; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor
* * ÷ CP009273 3762998 3763193 196 2 [0] [1] 2 [yibV]–yibV [yibV],yibV
* * ÷ CP009273 3763484 3763497 14 4 [0] [1] 2 yibU pseudogene, H repeat‑associated protein
* * ÷ CP009273 3790371 3790394 24 2 [0] [1] 2 waaL O‑antigen ligase
* * ÷ CP009273 3791599 3791619 21 2 [1] [1] 3 waaU lipopolysaccharide core biosynthesis
* * ÷ CP009273 3792383 3792429 47 2 [1] [1] 2 waaU lipopolysaccharide core biosynthesis
* * ÷ CP009273 3792498 3792536 39 2 [1] [1] 2 waaU lipopolysaccharide core biosynthesis
* * ÷ CP009273 3792664 3792701 38 2 [1] [1] 2 [waaU] [waaU]
* * ÷ CP009273 3794218 3794247 30 2 [1] [1] 2 waaY lipopolysaccharide core biosynthesis protein
* * ÷ CP009273 3798053 3798062 10 2 [1] [1] 2 waaS lipopolysaccharide core biosynthesis protein
* * ÷ CP009273 3798098 3798137 40 2 [1] [1] 2 waaS lipopolysaccharide core biosynthesis protein
* * ÷ CP009273 3830056 3830140 85 2 [1] [1] 2 yicT/setC pseudogene/putative arabinose efflux transporter
* * ÷ CP009273 3837242 3837305 64 2 [1] [1] 2 yicO/ade putative adenine permease/cryptic adenine deaminase
* * ÷ CP009273 4080277 4080391 115 2 [1] [1] 2 [yiiG] [yiiG]
* * ÷ CP009273 4241458 4241470 13 2 [1] [1] 2 yjbI pseudogene, SopA‑related, pentapeptide repeats‑containing
* * ÷ CP009273 4258485 4258504 20 2 [1] [1] 3 tyrB/yjbS tyrosine aminotransferase, tyrosine‑repressible, PLP‑dependent/uncharacterized protein
* * ÷ CP009273 4364203 4364214 12 2 [1] [1] 3 yjeJ/epmB uncharacterized protein/EF‑P‑Lys34 lysylation protein; weak lysine 2,3‑aminomutase
* * ÷ CP009273 4417247 4417288 42 2 [1] [0] 2 yjfZ/ytfA uncharacterized protein/pseudogene, related to transcriptional regulators
* * ÷ CP009273 4427366 4427382 17 2 [0] [1] 2 cysQ/ytfI 3'(2'),5'‑bisphosphate nucleotidase/uncharacterized protein
* * ÷ CP009273 4465846 4465895 50 2 [1] [1] 2 yjgL uncharacterized protein
* * ÷ CP009273 4487875 4487913 39 2 [1] [1] 2 intB/insC1 pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase/IS2 repressor TnpA
* * ÷ CP009273 4529457 4529470 14 2 [1] [1] 2 nanC/fimB N‑acetylnuraminic acid outer membrane channel protein/tyrosine recombinase/inversion of on/off regulator of fimA
* * ÷ CP009273 4530476 4530504 29 3 [1] [1] 2 nanC/fimB N‑acetylnuraminic acid outer membrane channel protein/tyrosine recombinase/inversion of on/off regulator of fimA
* * ÷ CP009273 4531420 4531535 116 2 [1] [1] 2 fimB/fimE tyrosine recombinase/inversion of on/off regulator of fimA/tyrosine recombinase/inversion of on/off regulator of fimA
* * ÷ CP009273 4531664 4531678 15 2 [1] [1] 2 fimB/fimE tyrosine recombinase/inversion of on/off regulator of fimA/tyrosine recombinase/inversion of on/off regulator of fimA
* * ÷ CP009273 4532590 4532607 18 2 [1] [1] 2 fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
* * ÷ CP009273 4532701 4532745 45 2 [1] [1] 2 fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
* * ÷ CP009273 4546147 4546175 29 2 [0] [1] 2 yjiC/iraD uncharacterized protein/RpoS stabilzer after DNA damage, anti‑RssB factor
* * ÷ CP009273 4570496 4570537 42 2 [1] [1] 2 hsdS specificity determinant for hsdM and hsdR
* * ÷ CP009273 4593004 4593062 59 2 [1] [1] 2 yjjP/yjjQ pseudogene, premature stop codon, putative structural protein/putative transcriptional regulator

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 15387 =NA (NA)6 (0.330) 6/252 NT 100% noncoding (1/1345 nt) IS186 repeat region
?CP009273 = 454251 0 (0.000)intergenic (+95/‑93) clpX/lon ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La
* ? CP009273 310940 =14 (0.750)11 (0.600)
+TC		 11/256 NT 33.2% intergenic (+1/‑62) eaeH/insE1 pseudogene, attaching and effacing protein homology;factor; Not classified/IS3 transposase A
?CP009273 831792 = 31 (1.650)intergenic (+126/‑15) ybiB/ybiC putative family 3 glycosyltransferase/putative dehydrogenase
* ? CP009273 360104 =17 (0.910)19 (1.010) 16/260 NT 54.3% intergenic (‑38/+557) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
?CP009273 = 360286 15 (0.800)intergenic (‑220/+375) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
* ? CP009273 454243 =0 (0.000)11 (0.600) 11/254 NT 100% intergenic (+87/‑101) clpX/lon ATPase and specificity subunit of ClpX‑ClpP ATP‑dependent serine protease/DNA‑binding ATP‑dependent protease La
?CP009273 = 604803 NA (NA)intergenic (+170/+112) insL1/entD IS186 transposase/phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex
* ? CP009273 562233 =NA (NA)17 (0.910) 16/260 NT 63.0% intergenic (+1/‑65) renD/insE1 pseudogene, DLP12 prophage;Phage or Prophage Related/IS3 transposase A
?CP009273 813695 = 10 (0.530)coding (185/513 nt) moaB inactive molybdopterin adenylyltransferase
* ? CP009273 1203246 =1 (0.050)11 (0.670) 11/228 NT 81.9% coding (290/630 nt) stfP e14 prophage; uncharacterized protein
?CP009273 1205075 = 4 (0.240)pseudogene (1/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
* ? CP009273 = 12032611 (0.050)7 (0.430) 7/228 NT 74.2% coding (305/630 nt) stfP e14 prophage; uncharacterized protein
?CP009273 = 1205058 4 (0.240)pseudogene (18/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related