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 66,706 T→C 86.7% intergenic (‑174/‑168) araD ← / → araC pseudogene, truncated/ara regulon transcriptional activator; autorepressor
RA 66,726 T→C 85.8% intergenic (‑194/‑148) araD ← / → araC pseudogene, truncated/ara regulon transcriptional activator; autorepressor
RA 122,613 G→A 5.4% K144K (AAG→AAA aceF → pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2
RA 284,986 A→C 11.3% intergenic (‑113/+26) yagI ← / ← argF CP4‑6 prophage; putative DNA‑binding transcriptional regulator/ornithine carbamoyltransferase 2, chain F; CP4‑6 prophage
RA 802,799 C→G 15.4% intergenic (‑62/+90) ybhC ← / ← ybhB acyl‑CoA thioesterase, lipoprotein/kinase inhibitor homolog, UPF0098 family
RA 930,957 C→G 5.8% P760A (CCG→GCG)  ftsK → DNA translocase at septal ring sorting daughter chromsomes
RA 999,598 A→C 6.0% T66P (ACG→CCG)  ycbF → putative periplasmic pilin chaperone
RA 1,282,421 A→C 9.0% intergenic (+439/+101) narI → / ← rttR nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript
RA 1,460,356 T→C 11.7% pseudogene (708/2513 nt) ydbA → pseudogene, autotransporter homolog; interrupted by IS2 and IS30
RA 1,460,359 A→G 10.6% pseudogene (711/2513 nt) ydbA → pseudogene, autotransporter homolog; interrupted by IS2 and IS30
RA 1,461,166 T→C 5.7% pseudogene (1518/2513 nt) ydbA → pseudogene, autotransporter homolog; interrupted by IS2 and IS30
RA 1,461,169 C→T 5.9% pseudogene (1521/2513 nt) ydbA → pseudogene, autotransporter homolog; interrupted by IS2 and IS30
RA 1,546,448 C→A 8.0% intergenic (+200/+207) fdnI → / ← yddM formate dehydrogenase‑N, cytochrome B556 (gamma) subunit, nitrate‑inducible/putative DNA‑binding transcriptional regulator
RA 1,702,966 T→A 10.0% R597R (CGT→CGA rsxC → SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA 1,703,062 T→A 10.8% R629R (CGT→CGA rsxC → SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA 1,703,158 A→C 14.4% R661R (CGA→CGC rsxC → SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA 1,703,251 A→C 6.2% A692A (GCA→GCC rsxC → SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA 1,703,295 T→A 9.8% V707E (GTA→GAA)  rsxC → SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex
RA 2,511,621 C→G 6.5% intergenic (‑26/+14) alaX ← / ← alaW tRNA‑Ala/tRNA‑Ala
RA 2,511,629 A→T 5.3% intergenic (‑34/+6) alaX ← / ← alaW tRNA‑Ala/tRNA‑Ala
RA 2,514,510 T→A 5.5% intergenic (+25/‑22) valU → / → valY tRNA‑Val/tRNA‑Val
RA 2,554,355 G→T 7.6% intergenic (+98/‑372) yffL → / → yffM CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein
RA 2,711,673 A→C 8.8% V72G (GTT→GGT)  yfiF ← putative methyltransferase
RA 3,263,441 A→T 7.3% intergenic (+480/+134) yhaC → / ← rnpB pentapetide repeats‑related protein/RNase P, M1 RNA component
RA 3,263,460 C→T 8.5% intergenic (+499/+115) yhaC → / ← rnpB pentapetide repeats‑related protein/RNase P, M1 RNA component
RA 3,263,466 G→T 15.5% intergenic (+505/+109) yhaC → / ← rnpB pentapetide repeats‑related protein/RNase P, M1 RNA component
RA 3,263,579 G→T 11.6% noncoding (373/377 nt) rnpB ← RNase P, M1 RNA component
RA 3,462,400 A→G 7.1% S271S (AGT→AGC chiA ← periplasmic endochitinase
RA 3,774,505 C→G 9.9% intergenic (+128/‑70) lldD → / → trmL L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent
RA 4,106,456 C→T 19.8% G232D (GGC→GAC)  glpK ← glycerol kinase
RA 4,106,459 C→T 14.3% G231D (GGC→GAC)  glpK ← glycerol kinase
RA 4,106,586 G→T 23.3% R189S (CGT→AGT)  glpK ← glycerol kinase
RA 4,106,634 T→C 5.5% K173E (AAA→GAA)  glpK ← glycerol kinase
RA 4,106,944 A→C 6.7% D69E (GAT→GAG glpK ← glycerol kinase
RA 4,106,987 G→A 7.6% A55V (GCC→GTC) ‡ glpK ← glycerol kinase
RA 4,106,988 C→T 6.2% A55T (GCC→ACC) ‡ glpK ← glycerol kinase
RA 4,382,371 G→T 8.7% intergenic (+7/‑29) glyX → / → glyY tRNA‑Gly/tRNA‑Gly
RA 4,596,120 C→A 7.5% intergenic (‑17/+12) leuP ← / ← leuQ tRNA‑Leu/tRNA‑Leu

Unassigned missing coverage evidence
   seq id start end size ←reads reads→ gene description
* * ÷ CP009273 246573 247227 655 121 [119] [117] 211 lafU pseudogene, lateral flagellar motor protein fragment
* * ÷ CP009273 2597319 2598078 760 186 [118] [97] 129 hyfC hydrogenase 4, membrane subunit

Unassigned new junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 = 253321 (0.910)18 (0.060) 8/92 NT 5.6% coding (64/66 nt) thrL thr operon leader peptide
?CP009273 = 278 338 (1.170)intergenic (+23/‑59) thrL/thrA thr operon leader peptide/Bifunctional aspartokinase/homoserine dehydrogenase 1
* ? CP009273 = 64557257 (0.730)14 (0.050) 8/94 NT 5.3% coding (1224/2352 nt) polB DNA polymerase II
?CP009273 = 64577 289 (0.980)coding (1204/2352 nt) polB DNA polymerase II
* ? CP009273 66560 =269 (0.760)1244 (5.800)
+22 bp
47/68 NT 85.9% intergenic (‑28/‑314) araD/araC pseudogene, truncated/ara regulon transcriptional activator; autorepressor
?CP009273 = 3509273 404 (1.140)intergenic (‑1/+106) dam/damX DNA adenine methyltransferase/cell division protein that binds to the septal ring
* ? CP009273 221943 =NA (NA)39 (0.130) 14/94 NT NA noncoding (76/77 nt) ileV tRNA‑Ile
?CP009273 221964 = NA (NA)intergenic (+20/‑23) ileV/alaV tRNA‑Ile/tRNA‑Ala
* ? CP009273 248296 =140 (0.400)20 (0.070) 9/96 NT 12.5% coding (912/1056 nt) dinB DNA polymerase IV
?CP009273 248360 = 159 (0.530)coding (976/1056 nt) dinB DNA polymerase IV
* ? CP009273 = 248303118 (0.330)36 (0.120) 9/96 NT 21.7% coding (919/1056 nt) dinB DNA polymerase IV
?CP009273 = 248351 159 (0.530)coding (967/1056 nt) dinB DNA polymerase IV
* ? CP009273 248326 =158 (0.450)8 (0.030) 5/96 NT 5.4% coding (942/1056 nt) dinB DNA polymerase IV
?CP009273 248370 = 143 (0.470)coding (986/1056 nt) dinB DNA polymerase IV
* ? CP009273 254726 =NA (NA)5 (0.020) 4/94 NT NA intergenic (+9/+30) crl/phoE RNA polymerase holoenzyme assembly factor crl/outer membrane phosphoporin protein E
?CP009273 254749 = NA (NA)intergenic (+32/+7) crl/phoE RNA polymerase holoenzyme assembly factor crl/outer membrane phosphoporin protein E
* ? CP009273 = 282361239 (0.680)15 (0.050) 8/92 NT 5.1% coding (1256/1383 nt) yagG CP4‑6 prophage; putative sugar transporter
?CP009273 = 282393 366 (1.260)coding (1288/1383 nt) yagG CP4‑6 prophage; putative sugar transporter
* ? CP009273 360070 =278 (0.790)622 (2.350)
+CTGATCAGTGAATT
21/84 NT 74.3% intergenic (‑4/+591) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
?CP009273 = 561564 297 (0.840)pseudogene (269/279 nt) exoD pseudogene, DLP12 prophage; phage‑type exonuclease family;Phage or Prophage Related
* ? CP009273 = 360096288 (0.820)1571 (4.530) 32/110 NT 83.1% intergenic (‑30/+565) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
?CP009273 3508417 = 356 (1.030)coding (2/678 nt) rpe D‑ribulose‑5‑phosphate 3‑epimerase
* ? CP009273 360104 =282 (0.800)500 (1.420) 60/112 NT 63.9% intergenic (‑38/+557) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
?CP009273 = 360286 NA (NA)intergenic (‑220/+375) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
* ? CP009273 360168 =NA (NA)58 (0.200) 12/94 NT NA intergenic (‑102/+493) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
?CP009273 360191 = NA (NA)intergenic (‑125/+470) lacZ/lacI pseudogene, truncated/DNA‑binding transcriptional repressor
* ? CP009273 376748 =NA (NA)11 (0.040) 8/94 NT NA intergenic (‑33/‑59) yaiX/insC1 pseudogene, interrupted by IS2A, acetyltransferase homolog; nonfunctional; interruped by IS2; putative transferase/IS2 repressor TnpA
?CP009273 376768 = NA (NA)intergenic (‑53/‑39) yaiX/insC1 pseudogene, interrupted by IS2A, acetyltransferase homolog; nonfunctional; interruped by IS2; putative transferase/IS2 repressor TnpA
* ? CP009273 = 394482NA (NA)9 (0.030) 5/98 NT NA coding (308/309 nt) yaiY DUF2755 family inner membrane protein
?CP009273 = 394503 NA (NA)coding (287/309 nt) yaiY DUF2755 family inner membrane protein
* ? CP009273 = 410282306 (0.870)32 (0.100) 12/98 NT 10.1% coding (928/3147 nt) sbcC exonuclease, dsDNA, ATP‑dependent
?CP009273 = 410288 304 (0.980)coding (922/3147 nt) sbcC exonuclease, dsDNA, ATP‑dependent
* ? CP009273 442673 =313 (0.890)20 (0.070) 11/90 NT 6.1% coding (489/891 nt) cyoE protoheme IX farnesyltransferase
?CP009273 442734 = 363 (1.280)coding (428/891 nt) cyoE protoheme IX farnesyltransferase
* ? CP009273 = 442683305 (0.860)29 (0.100) 11/90 NT 8.7% coding (479/891 nt) cyoE protoheme IX farnesyltransferase
?CP009273 = 442722 363 (1.280)coding (440/891 nt) cyoE protoheme IX farnesyltransferase
* ? CP009273 519440 =301 (0.850)17 (0.060) 11/96 NT 5.4% coding (724/4281 nt) rhsD Rhs family putative polymorphic toxin
?CP009273 519532 = 334 (1.100)coding (816/4281 nt) rhsD Rhs family putative polymorphic toxin
* ? CP009273 548176 =340 (0.960)18 (0.060) 9/96 NT 5.5% coding (381/510 nt) purE N5‑carboxyaminoimidazole ribonucleotide mutase
?CP009273 548229 = 331 (1.090)coding (328/510 nt) purE N5‑carboxyaminoimidazole ribonucleotide mutase
* ? CP009273 = 577278266 (0.750)19 (0.060) 9/96 NT 7.7% pseudogene (163/438 nt) tfaD pseudogene, DLP12 prophage; tail fiber assembly protein family;Phage or Prophage Related
?CP009273 = 1426905 NA (NA)coding (238/576 nt) tfaR Rac prophage; putative tail fiber assembly protein
* ? CP009273 699831 =300 (0.850)26 (0.090) 9/96 NT 10.2% coding (432/1947 nt) nagE fused N‑acetyl glucosamine specific PTS enzyme: IIC, IIB, and IIA components
?CP009273 699861 = 203 (0.670)coding (462/1947 nt) nagE fused N‑acetyl glucosamine specific PTS enzyme: IIC, IIB, and IIA components
* ? CP009273 = 725679NA (NA)9 (0.030) 8/100 NT NA coding (641/4194 nt) rhsC Rhs family putative polymorphic toxin
?CP009273 = 725702 NA (NA)coding (664/4194 nt) rhsC Rhs family putative polymorphic toxin
* ? CP009273 728285 =NA (NA)9 (0.030) 8/108 NT NA coding (3247/4194 nt) rhsC Rhs family putative polymorphic toxin
?CP009273 728314 = NA (NA)coding (3276/4194 nt) rhsC Rhs family putative polymorphic toxin
* ? CP009273 = 776704460 (1.300)61 (0.180)
+AAC
5/106 NT 12.3% intergenic (+26/‑121) lysY/lysZ tRNA‑Lys/tRNA‑Lys
?CP009273 = 777108 NA (NA)noncoding (76/76 nt) lysQ tRNA‑Lys
* ? CP009273 818337 =432 (1.220)18 (0.060) 5/98 NT 5.2% coding (859/1242 nt) clsB cardiolipin synthase 2
?CP009273 818368 = 276 (0.890)coding (828/1242 nt) clsB cardiolipin synthase 2
* ? CP009273 = 831686NA (NA)3 (0.010) 3/92 NT NA noncoding (9/24 nt) REP76 (repetitive extragenic palindromic) element; contains 1 REP sequences REP76 (repetitive extragenic palindromic) element; contains 1 REP sequences
?CP009273 = 831692 NA (NA)noncoding (15/24 nt) REP76 (repetitive extragenic palindromic) element; contains 1 REP sequences REP76 (repetitive extragenic palindromic) element; contains 1 REP sequences
* ? CP009273 841021 =354 (1.000)18 (0.060) 6/92 NT 5.8% intergenic (‑85/+176) ybiO/glnQ mechanosensitive channel protein, intermediate conductance/glutamine transporter subunit
?CP009273 841045 = NA (NA)intergenic (‑109/+152) ybiO/glnQ mechanosensitive channel protein, intermediate conductance/glutamine transporter subunit
* ? CP009273 = 902734157 (0.440)10 (0.030) 5/98 NT 6.4% coding (1005/1431 nt) ybjT putative NAD‑dependent oxidoreductase
?CP009273 = 902785 154 (0.500)coding (954/1431 nt) ybjT putative NAD‑dependent oxidoreductase
* ? CP009273 904473 =163 (0.460)10 (0.030) 5/98 NT 5.8% coding (278/1002 nt) ltaE L‑allo‑threonine aldolase, PLP‑dependent
?CP009273 904511 = 182 (0.590)coding (240/1002 nt) ltaE L‑allo‑threonine aldolase, PLP‑dependent
* ? CP009273 964816 =129 (0.370)10 (0.030) 7/94 NT 7.4% intergenic (+8/‑29) lpxK/ycaQ lipid A 4'kinase/DUF1006 family protein with C‑terminal wHTH domain
?CP009273 964858 = 143 (0.480)coding (14/1233 nt) ycaQ DUF1006 family protein with C‑terminal wHTH domain
* ? CP009273 = 1092557NA (NA)8 (0.020)
+GC
6/108 NT NA intergenic (+272/+464) ycdU/serX putative inner membrane protein/tRNA‑Ser
?CP009273 = 1092559 NA (NA)intergenic (+274/+462) ycdU/serX putative inner membrane protein/tRNA‑Ser
* ? CP009273 = 1092557NA (NA)21 (0.070) 6/96 NT NA intergenic (+272/+464) ycdU/serX putative inner membrane protein/tRNA‑Ser
?CP009273 = 1092561 NA (NA)intergenic (+276/+460) ycdU/serX putative inner membrane protein/tRNA‑Ser
* ? CP009273 1092949 =NA (NA)11 (0.030) 6/100 NT 16.6% intergenic (+664/+72) ycdU/serX putative inner membrane protein/tRNA‑Ser
?CP009273 1093045 = 62 (0.180)noncoding (64/88 nt) serX tRNA‑Ser
* ? CP009273 1101408 =140 (0.400)20 (0.070) 8/94 NT 13.8% coding (133/534 nt) ymdB O‑acetyl‑ADP‑ribose deacetylase; RNase III inhibitor during cold shock; putative cardiolipin synthase C regulatory subunit
?CP009273 1101450 = 132 (0.450)coding (175/534 nt) ymdB O‑acetyl‑ADP‑ribose deacetylase; RNase III inhibitor during cold shock; putative cardiolipin synthase C regulatory subunit
* ? CP009273 = 1161581203 (0.570)7 (0.030) 3/82 NT 5.2% coding (41/1305 nt) ndh respiratory NADH dehydrogenase 2/cupric reductase
?CP009273 1162077 = 106 (0.410)coding (537/1305 nt) ndh respiratory NADH dehydrogenase 2/cupric reductase
* ? CP009273 = 1161581203 (0.570)16 (0.050)
+A
11/110 NT 8.8% coding (41/1305 nt) ndh respiratory NADH dehydrogenase 2/cupric reductase
?CP009273 1162078 = 136 (0.390)coding (538/1305 nt) ndh respiratory NADH dehydrogenase 2/cupric reductase
* ? CP009273 = 1171843291 (0.820)16 (0.050)
+G
5/110 NT 5.8% coding (961/1200 nt) lolC lipoprotein‑releasing system transmembrane protein
?CP009273 = 1171944 238 (0.670)coding (1062/1200 nt) lolC lipoprotein‑releasing system transmembrane protein
* ? CP009273 1203246 =241 (0.680)87 (0.340) 28/80 NT 39.3% coding (290/630 nt) stfP e14 prophage; uncharacterized protein
?CP009273 1205075 = 97 (0.380)pseudogene (1/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
* ? CP009273 = 1203261278 (0.790)80 (0.320) 25/80 NT 35.1% coding (305/630 nt) stfP e14 prophage; uncharacterized protein
?CP009273 = 1205058 97 (0.380)pseudogene (18/501 nt) stfE pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related
* ? CP009273 1228601 =295 (0.840)12 (0.040) 7/94 NT 5.3% intergenic (‑115/+31) dsbB/nhaB oxidoreductase that catalyzes reoxidation of DsbA protein disulfide isomerase I/sodium:proton antiporter
?CP009273 1228623 = 180 (0.610)intergenic (‑137/+9) dsbB/nhaB oxidoreductase that catalyzes reoxidation of DsbA protein disulfide isomerase I/sodium:proton antiporter
* ? CP009273 1238033 =405 (1.150)17 (0.070) 13/76 NT 7.0% coding (504/915 nt) ldcA murein tetrapeptide carboxypeptidase; LD‑carboxypeptidase A
?CP009273 1238051 = 180 (0.750)coding (486/915 nt) ldcA murein tetrapeptide carboxypeptidase; LD‑carboxypeptidase A
* ? CP009273 = 1405235NA (NA)3 (0.010) 3/98 NT NA intergenic (+94/+35) dbpA/ttcA ATP‑dependent RNA helicase, specific for 23S rRNA/tRNA 2‑thiocytidine biosynthesis protein
?CP009273 = 1405259 NA (NA)intergenic (+118/+11) dbpA/ttcA ATP‑dependent RNA helicase, specific for 23S rRNA/tRNA 2‑thiocytidine biosynthesis protein
* ? CP009273 1433166 =190 (0.540)10 (0.030) 5/96 NT 5.3% coding (1876/3525 nt) pfo pyruvate‑flavodoxin oxidoreductase
?CP009273 1433229 = 193 (0.640)coding (1813/3525 nt) pfo pyruvate‑flavodoxin oxidoreductase
* ? CP009273 1505831 =231 (0.650)11 (0.040) 8/94 NT 5.3% intergenic (+165/‑80) ydcR/ydcS putative DNA‑binding transcriptional regulator/putative amino transferase/polyhydroxybutyrate (PHB) synthase, ABC transporter periplasmic binding protein homolog
?CP009273 1505880 = 200 (0.670)intergenic (+214/‑31) ydcR/ydcS putative DNA‑binding transcriptional regulator/putative amino transferase/polyhydroxybutyrate (PHB) synthase, ABC transporter periplasmic binding protein homolog
* ? CP009273 = 1821389237 (0.670)12 (0.040) 8/94 NT 5.9% coding (1128/1344 nt) astB succinylarginine dihydrolase
?CP009273 = 1821423 181 (0.610)coding (1094/1344 nt) astB succinylarginine dihydrolase
* ? CP009273 = 1823129149 (0.420)10 (0.030) 8/94 NT 6.9% coding (863/1479 nt) astD succinylglutamic semialdehyde dehydrogenase
?CP009273 = 1823150 144 (0.490)coding (842/1479 nt) astD succinylglutamic semialdehyde dehydrogenase
* ? CP009273 1834892 =342 (0.970)16 (0.050) 6/100 NT 5.7% coding (1169/1308 nt) ynjE molybdopterin synthase sulfurtransferase
?CP009273 1834923 = 229 (0.730)coding (1200/1308 nt) ynjE molybdopterin synthase sulfurtransferase
* ? CP009273 = 1870380276 (0.780)12 (0.040) 6/94 NT 5.0% coding (451/1182 nt) yeaN putative transporter
?CP009273 = 1870397 222 (0.750)coding (468/1182 nt) yeaN putative transporter
* ? CP009273 = 1871532275 (0.780)22 (0.070) 6/96 NT 8.7% intergenic (+19/+3) yeaO/yoaF DUF488 family protein/DUF333 family outer membrane lipoprotein
?CP009273 = 1871547 228 (0.750)coding (243/255 nt) yoaF DUF333 family outer membrane lipoprotein
* ? CP009273 1958516 =311 (0.880)13 (0.040) 6/96 NT 5.6% coding (792/2079 nt) flhA putative flagellar export pore protein
?CP009273 1958598 = 170 (0.560)coding (710/2079 nt) flhA putative flagellar export pore protein
* ? CP009273 = 2000783291 (0.820)20 (0.070) 9/96 NT 6.3% coding (1147/1488 nt) amyA cytoplasmic alpha‑amylase
?CP009273 = 2000836 344 (1.140)coding (1200/1488 nt) amyA cytoplasmic alpha‑amylase
* ? CP009273 2006338 =322 (0.910)16 (0.060) 8/92 NT 6.4% coding (158/315 nt) fliE flagellar basal‑body component
?CP009273 2006392 = 205 (0.710)coding (104/315 nt) fliE flagellar basal‑body component
* ? CP009273 = 2067468263 (0.740)12 (0.040) 9/96 NT 5.7% coding (2449/3120 nt) flu CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter
?CP009273 = 2067481 170 (0.560)coding (2462/3120 nt) flu CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter
* ? CP009273 = 2068566254 (0.720)13 (0.040) 6/96 NT 5.0% coding (307/1533 nt) yeeR CP4‑44 prophage; putative membrane protein
?CP009273 = 2068573 276 (0.910)coding (314/1533 nt) yeeR CP4‑44 prophage; putative membrane protein
* ? CP009273 = 2145164NA (NA)7 (0.020) 4/90 NT NA noncoding (10/28 nt) REP148 (repetitive extragenic palindromic) element; contains 1 REP sequences REP148 (repetitive extragenic palindromic) element; contains 1 REP sequences
?CP009273 = 2145172 NA (NA)noncoding (18/28 nt) REP148 (repetitive extragenic palindromic) element; contains 1 REP sequences REP148 (repetitive extragenic palindromic) element; contains 1 REP sequences
* ? CP009273 = 2191253170 (0.480)13 (0.050) 7/90 NT 7.2% pseudogene (1301/2847 nt) yehH DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function
?CP009273 = 2191263 201 (0.710)pseudogene (1311/2847 nt) yehH DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function
* ? CP009273 = 2402276NA (NA)6 (0.020) 3/96 NT NA noncoding (6/19 nt) REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences
?CP009273 = 2402283 NA (NA)noncoding (13/19 nt) REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences REP167 (repetitive extragenic palindromic) element; contains 1 REP sequences
* ? CP009273 2436000 =240 (0.680)13 (0.040) 7/94 NT 5.9% coding (758/2007 nt) mnmC fused 5‑methylaminomethyl‑2‑thiouridine‑forming enzyme methyltransferase and FAD‑dependent demodification enzyme
?CP009273 2436103 = 217 (0.730)coding (861/2007 nt) mnmC fused 5‑methylaminomethyl‑2‑thiouridine‑forming enzyme methyltransferase and FAD‑dependent demodification enzyme
* ? CP009273 = 2458952205 (0.580)11 (0.040) 6/94 NT 5.7% coding (173/933 nt) yfdC putative inner membrane protein
?CP009273 = 2458965 191 (0.640)coding (186/933 nt) yfdC putative inner membrane protein
* ? CP009273 = 2499292352 (1.000)19 (0.060) 10/98 NT 5.6% coding (820/1086 nt) ypdF Xaa‑Pro aminopeptidase
?CP009273 = 2499321 338 (1.090)coding (791/1086 nt) ypdF Xaa‑Pro aminopeptidase
* ? CP009273 = 2540715214 (0.610)16 (0.050) 5/94 NT 6.4% coding (684/1425 nt) murP N‑acetylmuramic acid permease, EIIBC component, PTS system
?CP009273 = 2540730 289 (0.980)coding (699/1425 nt) murP N‑acetylmuramic acid permease, EIIBC component, PTS system
* ? CP009273 = 2543932242 (0.690)15 (0.050) 9/94 NT 6.4% intergenic (‑28/+68) yfeX/yfeY porphyrinogen oxidase, cytoplasmic/RpoE‑regulated lipoprotein
?CP009273 = 2543937 239 (0.810)intergenic (‑33/+63) yfeX/yfeY porphyrinogen oxidase, cytoplasmic/RpoE‑regulated lipoprotein
* ? CP009273 = 2640581219 (0.620)11 (0.040) 8/98 NT 5.2% coding (104/2313 nt) pbpC penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain
?CP009273 = 2640609 208 (0.670)coding (76/2313 nt) pbpC penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain
* ? CP009273 2640634 =281 (0.800)18 (0.060) 8/94 NT 8.3% coding (51/2313 nt) pbpC penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain
?CP009273 2640664 = 162 (0.550)coding (21/2313 nt) pbpC penicillin‑insensitive murein repair transglycosylase; inactive transpeptidase domain
* ? CP009273 = 2657620262 (0.740)13 (0.040) 8/94 NT 5.1% intergenic (+16/‑129) suhB/yfhR inositol monophosphatase/putative S9 family prolyl oligopeptidase
?CP009273 = 2657626 266 (0.900)intergenic (+22/‑123) suhB/yfhR inositol monophosphatase/putative S9 family prolyl oligopeptidase
* ? CP009273 = 2680401NA (NA)8 (0.030) 3/90 NT NA noncoding (8/20 nt) REP187 (repetitive extragenic palindromic) element; contains 1 REP sequences REP187 (repetitive extragenic palindromic) element; contains 1 REP sequences
?CP009273 = 2680405 NA (NA)noncoding (12/20 nt) REP187 (repetitive extragenic palindromic) element; contains 1 REP sequences REP187 (repetitive extragenic palindromic) element; contains 1 REP sequences
* ? CP009273 2732272 =NA (NA)5 (0.020) 4/88 NT NA intergenic (+8/+35) pheA/tyrA chorismate mutase and prephenate dehydratase, P‑protein/fused chorismate mutase T/prephenate dehydrogenase
?CP009273 2732300 = NA (NA)intergenic (+36/+7) pheA/tyrA chorismate mutase and prephenate dehydratase, P‑protein/fused chorismate mutase T/prephenate dehydrogenase
* ? CP009273 2747582 =329 (0.930)16 (0.050) 5/94 NT 6.2% coding (76/291 nt) ratB UPF0125 family protein
?CP009273 2747605 = 207 (0.700)coding (53/291 nt) ratB UPF0125 family protein
* ? CP009273 = 2787501NA (NA)4 (0.010) 4/98 NT NA noncoding (115/136 nt) REP191 (repetitive extragenic palindromic) element; contains 3 REP sequences REP191 (repetitive extragenic palindromic) element; contains 3 REP sequences
?CP009273 = 2787551 NA (NA)intergenic (+177/‑61) gabT/gabP 4‑aminobutyrate aminotransferase, PLP‑dependent/gamma‑aminobutyrate transporter
* ? CP009273 2787742 =424 (1.200)27 (0.090) 10/96 NT 7.7% coding (131/1401 nt) gabP gamma‑aminobutyrate transporter
?CP009273 2787778 = 287 (0.950)coding (167/1401 nt) gabP gamma‑aminobutyrate transporter
* ? CP009273 2845465 =219 (0.620)15 (0.050) 8/96 NT 5.7% coding (243/273 nt) hypC hydrogenase maturation protein
?CP009273 2845525 = 311 (1.030)coding (31/1122 nt) hypD hydrogenase maturation protein
* ? CP009273 = 2974100NA (NA)8 (0.030) 6/90 NT NA noncoding (9/23 nt) REP208 (repetitive extragenic palindromic) element; contains 1 REP sequences REP208 (repetitive extragenic palindromic) element; contains 1 REP sequences
?CP009273 = 2974105 NA (NA)noncoding (14/23 nt) REP208 (repetitive extragenic palindromic) element; contains 1 REP sequences REP208 (repetitive extragenic palindromic) element; contains 1 REP sequences
* ? CP009273 = 3015939437 (1.240)24 (0.080) 12/96 NT 6.4% coding (1265/2871 nt) xdhD putative hypoxanthine oxidase, molybdopterin‑binding/Fe‑S binding
?CP009273 = 3015996 324 (1.070)coding (1322/2871 nt) xdhD putative hypoxanthine oxidase, molybdopterin‑binding/Fe‑S binding
* ? CP009273 3031308 =414 (1.170)17 (0.060) 9/98 NT 5.2% coding (158/1734 nt) recJ ssDNA exonuclease, 5' ‑‑> 3'‑specific
?CP009273 3031324 = 259 (0.840)coding (142/1734 nt) recJ ssDNA exonuclease, 5' ‑‑> 3'‑specific
* ? CP009273 3060669 =345 (0.980)12 (0.040) 9/92 NT 5.0% intergenic (‑137/+30) ygfI/yggE putative DNA‑binding transcriptional regulator/oxidative stress defense protein
?CP009273 3060693 = 170 (0.590)intergenic (‑161/+6) ygfI/yggE putative DNA‑binding transcriptional regulator/oxidative stress defense protein
* ? CP009273 = 3202572194 (0.550)18 (0.060) 4/92 NT 11.0% coding (1190/1464 nt) ttdT L‑tartrate/succinate antiporte
?CP009273 = 3202615 131 (0.450)coding (1233/1464 nt) ttdT L‑tartrate/succinate antiporte
* ? CP009273 3215213 =204 (0.580)15 (0.050) 6/96 NT 7.2% coding (389/984 nt) ebgR transcriptional repressor
?CP009273 3215274 = 211 (0.700)coding (450/984 nt) ebgR transcriptional repressor
* ? CP009273 = 3348965299 (0.850)27 (0.090) 12/96 NT 9.7% coding (882/4461 nt) gltB glutamate synthase, large subunit
?CP009273 = 3349001 249 (0.820)coding (918/4461 nt) gltB glutamate synthase, large subunit
* ? CP009273 3375198 =324 (0.920)16 (0.050) 6/94 NT 6.0% coding (1097/1368 nt) degQ serine endoprotease, periplasmic
?CP009273 3375228 = 227 (0.770)coding (1127/1368 nt) degQ serine endoprotease, periplasmic
* ? CP009273 = 3462138400 (1.130)19 (0.080) 8/78 NT 5.2% coding (1075/2694 nt) chiA periplasmic endochitinase
?CP009273 3462463 = 416 (1.690)coding (750/2694 nt) chiA periplasmic endochitinase
* ? CP009273 = 3487124NA (NA)11 (0.040) 6/96 NT NA noncoding (8/26 nt) REP248 (repetitive extragenic palindromic) element; contains 1 REP sequences REP248 (repetitive extragenic palindromic) element; contains 1 REP sequences
?CP009273 = 3487134 NA (NA)noncoding (18/26 nt) REP248 (repetitive extragenic palindromic) element; contains 1 REP sequences REP248 (repetitive extragenic palindromic) element; contains 1 REP sequences
* ? CP009273 3509341 =536 (1.520)30 (0.100) 7/94 NT 7.4% intergenic (‑69/+38) dam/damX DNA adenine methyltransferase/cell division protein that binds to the septal ring
?CP009273 3509369 = 302 (1.020)intergenic (‑97/+10) dam/damX DNA adenine methyltransferase/cell division protein that binds to the septal ring
* ? CP009273 = 3538010287 (0.810)16 (0.050) 14/94 NT 5.9% coding (194/771 nt) bioH pimeloyl‑ACP methyl ester carboxylesterase
?CP009273 = 3538051 274 (0.920)coding (153/771 nt) bioH pimeloyl‑ACP methyl ester carboxylesterase
* ? CP009273 = 3547436281 (0.800)17 (0.050) 10/106 NT 6.0% coding (993/2706 nt) malT mal regulon transcriptional activator
?CP009273 = 3547454 265 (0.790)coding (1011/2706 nt) malT mal regulon transcriptional activator
* ? CP009273 3613276 =NA (NA)9 (0.030) 5/106 NT NA coding (725/4236 nt) rhsB Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor
?CP009273 3613329 = NA (NA)coding (778/4236 nt) rhsB Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor
* ? CP009273 = 3614222NA (NA)4 (0.010) 3/102 NT 100% coding (1671/4236 nt) rhsB Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor
?CP009273 = 3614373 0 (0.000)coding (1822/4236 nt) rhsB Rhs family putative polymorphic toxin, putative neighboring cell growth inhibitor
* ? CP009273 = 3630213272 (0.770)30 (0.110) 15/84 NT 13.1% coding (558/1203 nt) yhiN putative oxidoreductase
?CP009273 = 3630199 195 (0.740)coding (572/1203 nt) yhiN putative oxidoreductase
* ? CP009273 = 3693271207 (0.590)17 (0.060) 6/94 NT 8.6% intergenic (+18/+69) bcsG/ldrD DUF3260 family inner membrane protein associated with cellulose production/toxic polypeptide, small
?CP009273 = 3693281 188 (0.630)intergenic (+28/+59) bcsG/ldrD DUF3260 family inner membrane protein associated with cellulose production/toxic polypeptide, small
* ? CP009273 3701734 =NA (NA)14 (0.050) 7/96 NT 11.9% intergenic (‑669/+242) dppA/proK dipeptide transporter/tRNA‑Pro
?CP009273 3701742 = 121 (0.340)intergenic (‑677/+234) dppA/proK dipeptide transporter/tRNA‑Pro
* ? CP009273 = 370178694 (0.270)5 (0.020) 4/88 NT 6.3% intergenic (‑721/+190) dppA/proK dipeptide transporter/tRNA‑Pro
?CP009273 = 3701789 NA (NA)intergenic (‑724/+187) dppA/proK dipeptide transporter/tRNA‑Pro
* ? CP009273 3832491 =316 (0.900)16 (0.050) 5/96 NT 6.9% coding (884/924 nt) yicL EamA family inner membrane putative transporter
?CP009273 3832524 = 162 (0.540)coding (917/924 nt) yicL EamA family inner membrane putative transporter
* ? CP009273 3847022 =NA (NA)9 (0.030) 6/88 NT NA intergenic (+20/‑260) tisB/emrD toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein
?CP009273 3847050 = NA (NA)intergenic (+48/‑232) tisB/emrD toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein
* ? CP009273 3851553 =348 (0.990)32 (0.120) 13/86 NT 12.3% coding (212/1494 nt) yidJ sulfatase/phosphatase superfamily protein
?CP009273 3851602 = 188 (0.690)coding (163/1494 nt) yidJ sulfatase/phosphatase superfamily protein
* ? CP009273 3920778 =352 (1.000)28 (0.100) 8/88 NT 9.9% coding (264/993 nt) asnA asparagine synthetase A
?CP009273 3920817 = 234 (0.840)coding (303/993 nt) asnA asparagine synthetase A
* ? CP009273 = 3921522321 (0.910)22 (0.070) 5/100 NT 7.0% coding (1442/1452 nt) viaA stimulator of RavA ATPase activity; von Willebrand factor domain protein
?CP009273 = 3921534 302 (0.960)coding (1430/1452 nt) viaA stimulator of RavA ATPase activity; von Willebrand factor domain protein
* ? CP009273 = 39352503 (0.010)72 (0.230)
+AAGCTGT
6/98 NT 96.5% noncoding (83/1542 nt) rrsC 16S ribosomal RNA of rrnC operon
?CP009273 = 4028968 NA (NA)noncoding (78/1542 nt) rrsA 16S ribosomal RNA of rrnA operon
* ? CP009273 = 3999963455 (1.290)18 (0.060) 8/98 NT 5.7% coding (740/1830 nt) recQ ATP‑dependent DNA helicase
?CP009273 = 4000007 195 (0.630)coding (784/1830 nt) recQ ATP‑dependent DNA helicase
* ? CP009273 = 4034176NA (NA)23 (0.080) 7/92 NT 8.4% intergenic (+180/+90) rrfA/mobB 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B
?CP009273 = 4034200 306 (0.870)intergenic (+204/+66) rrfA/mobB 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B
* ? CP009273 = 4047497255 (0.720)26 (0.090) 9/94 NT 9.7% coding (1142/1410 nt) glnG fused DNA‑binding response regulator in two‑component regulatory system with GlnL: response regulator/sigma54 interaction protein
?CP009273 = 4047517 271 (0.910)coding (1122/1410 nt) glnG fused DNA‑binding response regulator in two‑component regulatory system with GlnL: response regulator/sigma54 interaction protein
* ? CP009273 4061067 =357 (1.010)23 (0.080) 8/94 NT 8.4% coding (1570/2037 nt) yihQ alpha‑glucosidase
?CP009273 4061094 = 205 (0.690)coding (1543/2037 nt) yihQ alpha‑glucosidase
* ? CP009273 4161825 =NA (NA)13 (0.040) 6/96 NT 100% intergenic (+141/‑160) rrfB/murB 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding
?CP009273 4161830 = 0 (0.000)intergenic (+146/‑155) rrfB/murB 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding
* ? CP009273 4190073 =396 (1.120)57 (0.200) 16/90 NT 15.3% intergenic (+51/‑136) yjaG/hupA DUF416 domain protein/HU, DNA‑binding transcriptional regulator, alpha subunit
?CP009273 4190110 = 311 (1.100)intergenic (+88/‑99) yjaG/hupA DUF416 domain protein/HU, DNA‑binding transcriptional regulator, alpha subunit
* ? CP009273 4230085 =NA (NA)8 (0.030) 6/98 NT NA noncoding (1/37 nt) REP314 (repetitive extragenic palindromic) element; contains 1 REP sequences REP314 (repetitive extragenic palindromic) element; contains 1 REP sequences
?CP009273 4230118 = NA (NA)noncoding (34/37 nt) REP314 (repetitive extragenic palindromic) element; contains 1 REP sequences REP314 (repetitive extragenic palindromic) element; contains 1 REP sequences
* ? CP009273 = 4308345393 (1.110)24 (0.080) 9/94 NT 7.3% coding (237/759 nt) phnK carbon‑phosphorus lyase complex subunit, putative ATP transporter ATP‑binding protein
?CP009273 = 4308403 280 (0.940)coding (179/759 nt) phnK carbon‑phosphorus lyase complex subunit, putative ATP transporter ATP‑binding protein
* ? CP009273 4315768 =NA (NA)12 (0.040) 9/98 NT NA noncoding (150/583 nt) REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences
?CP009273 4315798 = NA (NA)noncoding (180/583 nt) REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences REP325 (repetitive extragenic palindromic) element; contains 12 REP sequences
* ? CP009273 4321902 =463 (1.310)17 (0.060) 9/92 NT 5.2% intergenic (+81/‑31) proP/pmrR proline/glycine betaine transporter/putative membrane‑bound BasS regulator
?CP009273 4321930 = 242 (0.830)intergenic (+109/‑3) proP/pmrR proline/glycine betaine transporter/putative membrane‑bound BasS regulator
* ? CP009273 4328027 =170 (0.480)15 (0.050) 7/96 NT 7.4% intergenic (‑281/+44) adiY/adiA adi system transcriptional activator/arginine decarboxylase
?CP009273 4328055 = 232 (0.770)intergenic (‑309/+16) adiY/adiA adi system transcriptional activator/arginine decarboxylase
* ? CP009273 = 4363150NA (NA)4 (0.010) 3/96 NT NA intergenic (+171/+32) yjeI/yjeJ DUF4156 family lipoprotein/uncharacterized protein
?CP009273 = 4363154 NA (NA)intergenic (+175/+28) yjeI/yjeJ DUF4156 family lipoprotein/uncharacterized protein
* ? CP009273 4501871 =211 (0.600)16 (0.060) 7/92 NT 5.5% coding (361/957 nt) fecD iron‑dicitrate transporter subunit
?CP009273 4501966 = 379 (1.310)coding (266/957 nt) fecD iron‑dicitrate transporter subunit
* ? CP009273 4506708 =289 (0.820)21 (0.070) 7/94 NT 8.4% coding (827/954 nt) fecR FecI pro‑sigma factor; transmembrane signal transducer for ferric citrate transport; periplasmic FecA:ferric citrate sensor and cytoplasmic FecI ECF sigma factor activator
?CP009273 4506742 = 215 (0.730)coding (793/954 nt) fecR FecI pro‑sigma factor; transmembrane signal transducer for ferric citrate transport; periplasmic FecA:ferric citrate sensor and cytoplasmic FecI ECF sigma factor activator
* ? CP009273 4512275 =279 (0.790)18 (0.060) 8/92 NT 6.6% coding (1637/1968 nt) yjhG putative dehydratase
?CP009273 4512318 = 281 (0.970)coding (1594/1968 nt) yjhG putative dehydratase
* ? CP009273 4532499 =110 (0.310)9 (0.030) 7/94 NT 7.2% intergenic (+49/‑433) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
?CP009273 4532813 = 141 (0.480)intergenic (+363/‑119) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
* ? CP009273 = 4548130283 (0.800)26 (0.090) 9/88 NT 10.8% intergenic (‑24/+41) hypT/iadA hypochlorite‑responsive transcription factor/isoaspartyl dipeptidase
?CP009273 = 4548153 206 (0.740)intergenic (‑47/+18) hypT/iadA hypochlorite‑responsive transcription factor/isoaspartyl dipeptidase
* ? CP009273 4583141 =NA (NA)7 (0.020) 5/90 NT NA intergenic (+12/+37) tsr/yjjL methyl‑accepting chemotaxis protein I, serine sensor receptor/L‑galactonate transporter
?CP009273 4583171 = NA (NA)intergenic (+42/+7) tsr/yjjL methyl‑accepting chemotaxis protein I, serine sensor receptor/L‑galactonate transporter