mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 6,672 | G→A | L430F (CTC→TTC) | yaaJ ← | sodium:alanine symporter family protein |
| RA | 45,367 | C→T | S396S (AGC→AGT) | fixC → | FAD‑dependent oxidoreductase |
| RA | 49,765 | C→T | intergenic (+134/‑58) | kefC → / → folA | glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase |
| RA | 49,898 | G→A | A26T (GCC→ACC) | folA → | type 3 dihydrofolate reductase |
| RA | 49,910 | T→G | W30G (TGG→GGG) | folA → | type 3 dihydrofolate reductase |
| RA | 59,627 | C→A | intergenic (‑153/+60) | BW25113_RS25400 ← / ← rluA | transposase/bifunctional tRNA pseudouridine(32) synthase/23S rRNA pseudouridine(746) synthase RluA |
| RA | 62,451 | C→G | A272P (GCC→CCC) | rapA ← | RNA polymerase‑associated protein RapA |
| RA | 85,430 | G→A | A306T (GCA→ACA) | cra → | catabolite repressor/activator |
| RA | 85,763 | C→T | intergenic (+244/‑358) | cra → / → mraZ | catabolite repressor/activator/division/cell wall cluster transcriptional repressor MraZ |
| RA | 96,834 | A→C | Q235P (CAA→CCA) | murG → | undecaprenyldiphospho‑muramoylpentapeptide beta‑N‑acetylglucosaminyltransferase |
| RA | 100,067 | A→G | G142G (GGA→GGG) | ftsQ → | cell division protein FtsQ |
| RA | 103,795 | G→A | G251D (GGT→GAT) | lpxC → | UDP‑3‑O‑acyl‑N‑acetylglucosamine deacetylase |
| RA | 123,341 | T→A | L387Q (CTG→CAG) | aceF → | pyruvate dehydrogenase complex dihydrolipoyllysine‑residue acetyltransferase |
| RA | 125,152 | A→G | M252V (ATG→GTG) | lpdA → | dihydrolipoyl dehydrogenase |
| RA | 149,183 | A→G | C39C (TGT→TGC) | yadM ← | fimbrial protein |
| RA | 183,409 | A→G | F577L (TTT→CTT) | glnD ← | bifunctional uridylyltransferase/uridylyl‑removing protein GlnD |
| RA | 188,059 | G→T | S239I (AGC→ATC) | tsf → | translation elongation factor Ts |
| RA | 189,045 | A→T | E235V (GAA→GTA) | pyrH → | UMP kinase |
| RA | 193,289 | A→G | H86R (CAC→CGC) | rseP → | sigma E protease regulator RseP |
| RA | 221,468 | T→C | noncoding (1211/1542 nt) | BW25113_RS01010 → | 16S ribosomal RNA |
| RA | 232,843 | T→A | I97N (ATC→AAC) | dnaQ → | DNA polymerase III subunit epsilon |
| RA | 249,348 | G→A | E51E (GAG→GAA) | yafP → | GNAT family N‑acetyltransferase |
| RA | 251,770 | T→C | E145G (GAA→GGA) | pepD ← | cytosol nonspecific dipeptidase |
| RA | 288,667 | A→G | intergenic (‑8/+264) | yagK ← / ← yagL | inovirus Gp2 family protein/recombinase family protein |
| RA | 306,481 | (T)5→4 | coding (519/543 nt) | ecpR ← | ECP biosynthesis operon DNA‑binding transcriptional regulator EcpR |
| RA | 307,835 | C→T | P5S (CCG→TCG) | BW25113_RS01515 → | hypothetical protein |
| RA | 339,921 | T→C | M12T (ATG→ACG) | BW25113_RS01680 → | hypothetical protein |
| RA | 345,822 | A→T | T34S (ACC→TCC) | prpC → | 2‑methylcitrate synthase |
| RA | 362,870 | G→T | Q9H (CAG→CAT) | mhpA → | bifunctional 3‑(3‑hydroxy‑phenyl)propionate/3‑hydroxycinnamic acid hydroxylase |
| RA | 369,445 | T→A | V41E (GTG→GAG) | dmpG → | 4‑hydroxy‑2‑oxovalerate aldolase |
| RA | 381,199 | A→G | D171G (GAT→GGT) | tauA → | taurine ABC transporter substrate‑binding protein |
| RA | 400,441 | T→C | E220E (GAA→GAG) | proC ← | pyrroline‑5‑carboxylate reductase |
| RA | 409,497 | T→C | R571R (CGA→CGG) | sbcC ← | exonuclease subunit SbcC |
| RA | 412,148 | G→A | V87V (GTC→GTT) | sbcD ← | exonuclease subunit SbcD |
| RA | 436,326 | C→T | A78T (GCT→ACT) | ispA ← | (2E,6E)‑farnesyl diphosphate synthase |
| RA | 443,081 | C→T | L27L (CTG→CTA) | cyoE ← | heme o synthase |
| RA | 449,442 | A→G | V61A (GTC→GCC) | yajG ← | lipoprotein |
| RA | 481,749 | G→A | W178* (TGG→TAG) | acrR → | multidrug efflux transporter transcriptional repressor AcrR |
| RA | 484,563 | G→A | A858T (GCG→ACG) | mscK → | mechanosensitive channel MscK |
| RA | 493,309 | (C)5→4 | intergenic (+34/‑202) | adk → / → hemH | adenylate kinase/ferrochelatase |
| RA | 518,671 | (T)9→8 | intergenic (+385/‑46) | ybbP → / → rhsD | ABC transporter permease/rhs element protein RhsD |
| RA | 528,392 | C→A | intergenic (+3/‑75) | allA → / → allR | ureidoglycolate lyase/HTH‑type transcriptional repressor AllR |
| RA | 543,592 | C→T | T486I (ACC→ATC) | fdrA → | acyl‑CoA synthetase FdrA |
| RA | 547,284 | A→G | I256T (ATC→ACC) | purK ← | 5‑(carboxyamino)imidazole ribonucleotide synthase |
| RA | 547,771 | T→C | T94A (ACT→GCT) | purK ← | 5‑(carboxyamino)imidazole ribonucleotide synthase |
| RA | 547,953 | T→C | D33G (GAC→GGC) | purK ← | 5‑(carboxyamino)imidazole ribonucleotide synthase |
| RA | 579,413 | (T)6→5 | coding (277/750 nt) | appY → | DNA‑binding transcriptional activator AppY |
| RA | 585,704 | T→A | D236V (GAT→GTT) | nfrA ← | bacteriophage adsorption protein NfrA |
| RA | 599,729 | C→T | A131T (GCA→ACA) | ybdG ← | mechanosensitive ion channel YbdG |
| RA | 624,200 | G→A | R65Q (CGA→CAA) | entA → | 2,3‑dihydro‑2,3‑dihydroxybenzoate dehydrogenase EntA |
| RA | 628,572 | G→A | A121V (GCC→GTC) | hcxA ← | hydroxycarboxylate dehydrogenase HcxA |
| RA | 633,831 | C→T | A67T (GCT→ACT) | dsbG ← | thiol:disulfide interchange protein DsbG |
| RA | 635,912 | G→A | G235D (GGC→GAC) | ahpF → | alkyl hydroperoxide reductase subunit F |
| RA | 640,333 | A→C | W43G (TGG→GGG) | rna ← | ribonuclease I |
| RA | 683,163 | G→A | A14V (GCG→GTG) | gltI ← | glutamate/aspartate ABC transporter substrate‑binding protein GltI |
| RA | 714,441 | A→T | D492E (GAT→GAA) | speF ← | ornithine decarboxylase SpeF |
| RA | 721,666 | A→G | V276A (GTC→GCC) | kdpB ← | potassium‑transporting ATPase subunit KdpB |
| RA | 734,002 | T→C | pseudogene (455/759 nt) | ybfD → | ISAs1 family transposase |
| RA | 753,637 | A→G | N165D (AAT→GAT) | sdhB → | succinate dehydrogenase iron‑sulfur subunit SdhB |
| RA | 783,406 | T→C | G296G (GGA→GGG) | galM ← | galactose‑1‑epimerase |
| RA | 797,386 | T→C | I15T (ATC→ACC) | ybhI → | anion permease |
| RA | 798,635 | T→C | G431G (GGT→GGC) | ybhI → | anion permease |
| RA | 803,049 | G→A | A106V (GCA→GTA) | ybhB ← | kinase inhibitor |
| RA | 861,119 | G→A | R234R (CGC→CGT) | moeA ← | molybdopterin molybdotransferase MoeA |
| RA | 869,360 | T→C | F309S (TTC→TCC) | pdeI → | EAL domain‑containing protein |
| RA | 883,821 | C→T | V485V (GTG→GTA) | ybjL ← | aspartate:alanine antiporter |
| RA | 918,237 | T→A | N14K (AAT→AAA) | yljB → | protein YljB |
| RA | 929,816 | T→C | G379G (GGT→GGC) | ftsK → | DNA translocase FtsK |
| RA | 937,543 | A→C | T377P (ACC→CCC) | dmsA → | dimethylsulfoxide reductase subunit A |
| RA | 958,894 | G→A | E482K (GAA→AAA) | rpsA → | 30S ribosomal protein S1 |
| RA | 980,640 | G→A | L176L (CTG→TTG) | aspC ← | aspartate transaminase |
| RA | 1,006,907 | T→C | D496D (GAT→GAC) | uup → | ABC transporter ATP‑binding protein |
| RA | 1,017,704 | C→A | A549S (GCC→TCC) | yccS ← | YccS family putative transporter |
| RA | 1,043,563 | A→C | G195G (GGT→GGG) | gfcC ← | capsule biosynthesis GfcC family protein |
| RA | 1,047,923 | (T)5→4 | coding (896/1074 nt) | yccM ← | 4Fe‑4S binding protein |
| RA | 1,049,216 | A→G | S807P (TCG→CCG) | torS ← | TMAO reductase system sensor histidine kinase/response regulator TorS |
| RA | 1,069,819 | T→G | L41R (CTG→CGG) | rutR → | HTH‑type transcriptional regulator RutR |
| RA | 1,070,975 | G→A | L1122F (CTC→TTC) | putA ← | trifunctional transcriptional regulator/proline dehydrogenase/L‑glutamate gamma‑semialdehyde dehydrogenase |
| RA | 1,077,887 | G→A | K63K (AAG→AAA) | efeO → | iron uptake system protein EfeO |
| RA | 1,083,482 | T→C | Q611R (CAA→CGA) | pgaB ← | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine N‑deacetylase PgaB |
| RA | 1,097,827 | A→C | G57G (GGT→GGG) | csgE ← | curli production assembly/transport protein CsgE |
| RA | 1,100,664 | A→T | D83V (GAT→GTT) | csgC → | curli assembly chaperone CsgC |
| RA | 1,119,962 | T→C | E274G (GAA→GGA) | mdtH ← | multidrug efflux MFS transporter MdtH |
| RA | 1,121,190 | G→A | G58D (GGC→GAC) | rimJ → | ribosomal protein S5‑alanine N‑acetyltransferase |
| RA | 1,134,272 | A→G | T147A (ACC→GCC) | flgK → | flagellar hook‑associated protein FlgK |
| RA | 1,158,853 | Δ1 bp | coding (138/825 nt) | thiK → | thiamine kinase |
| RA | 1,196,042 | A→G | I74T (ATC→ACC) | intE ← | site‑specific integrase |
| RA | 1,199,864 | G→A | pseudogene (239/246 nt) pseudogene (8/1137 nt) |
BW25113_RS26105 → BW25113_RS05965 → |
helix‑turn‑helix domain‑containing protein terminase large subunit |
| RA | 1,213,874 | Δ1 bp | coding (1091/1524 nt) | pdeG → | cyclic diguanylate phosphodiesterase |
| RA | 1,236,170 | A→C | L453R (CTT→CGT) | cvrA ← | potassium/proton antiporter |
| RA | 1,256,207 | G→A | A9V (GCT→GTT) | dauA ← | C4‑dicarboxylic acid transporter DauA |
| RA | 1,280,272 | G→A | A405T (GCA→ACA) | narH → | nitrate reductase subunit beta |
| RA | 1,284,091 | (A)5→4 | intergenic (‑11/+39) | purU ← / ← ychJ | formyltetrahydrofolate deformylase/YchJ family protein |
| RA | 1,314,400 | C→T | A414A (GCG→GCA) | trpD ← | bifunctional anthranilate synthase glutamate amidotransferase component TrpG/anthranilate phosphoribosyltransferase TrpD |
| RA | 1,350,506 | G→T | R288S (CGT→AGT) | sapA ← | peptide ABC transporter substrate‑binding protein SapA |
| RA | 1,367,307 | T→C | V381A (GTA→GCA) | ycjN → | ABC transporter substrate‑binding protein |
| RA | 1,373,111 | G→A | G324D (GGC→GAC) | ycjT → | kojibiose phosphorylase |
| RA | 1,386,326 | C→T | R27C (CGC→TGC) | pgrR → | DNA‑binding transcriptional regulator PgrR |
| RA | 1,401,680 | G→A | R125C (CGC→TGC) | dgcM ← | diguanylate cyclase DgcM |
| RA | 1,405,453 | C→T | P251P (CCG→CCA) | ttcA ← | tRNA 2‑thiocytidine(32) synthetase TtcA |
| RA | 1,412,718 | A→C | intergenic (‑232/‑210) | kilR ← / → sieB | killing protein KilR/superinfection exclusion B family protein |
| RA | 1,506,942 | T→G | G344G (GGT→GGG) | ydcS → | ABC transporter substrate‑binding protein |
| RA | 1,513,670 | G→A | V129V (GTG→GTA) | curA → | NADPH‑dependent curcumin/dihydrocurcumin reductase |
| RA | 1,524,293 | A→G | intergenic (+98/‑105) | BW25113_RS07645 → / → BW25113_RS26145 | RHS repeat protein/hypothetical protein |
| RA | 1,546,168 | T→G | W192G (TGG→GGG) | fdnI → | formate dehydrogenase‑N subunit gamma |
| RA | 1,547,080 | G→A | intergenic (‑141/+5) | yddM ← / ← adhP | HigA family addiction module antitoxin/alcohol dehydrogenase AdhP |
| RA | 1,549,065 | C→T | A288T (GCG→ACG) | maeA ← | malate dehydrogenase |
| RA | 1,550,159 | C→T | R21H (CGC→CAC) | sra ← | stationary‑phase‑induced ribosome‑associated protein |
| RA | 1,561,943 | C→T | E380K (GAA→AAA) | digH ← | glycoside hydrolase family 10 protein |
| RA | 1,576,900 | (A)6→5 | intergenic (‑119/+283) | ydeN ← / ← ydeO | sulfatase/acid stress response transcriptional regulator YdeO |
| RA | 1,579,503 | A→G | V414A (GTC→GCC) | ydeP ← | acid resistance putative oxidoreductase YdeP |
| RA | 1,581,105 | A→G | V296A (GTC→GCC) | ydeQ ← | fimbrial protein |
| RA | 1,582,843 | A→G | V85A (GTT→GCT) | ydeS ← | fimbrial protein |
| RA | 1,597,630 | G→A | V119I (GTT→ATT) | lsrC → | autoinducer 2 ABC transporter permease LsrC |
| RA | 1,603,097 | A→C | G61G (GGT→GGG) | yneE ← | bestrophin family protein |
| RA | 1,603,103 | A→G | I59I (ATT→ATC) | yneE ← | bestrophin family protein |
| RA | 1,605,384 | T→C | pseudogene (767/987 nt) | dgcF ← | GGDEF domain‑containing protein |
| RA | 1,635,187 | T→C | P42P (CCT→CCC) | ynfU → | putative zinc‑binding protein YnfU |
| RA | 1,664,928 | T→C | S325P (TCG→CCG) | ynfM → | MFS transporter |
| RA | 1,718,009 | A→G | E544E (GAA→GAG) | ydhK → | FUSC family protein |
| RA | 1,744,804 | T→C | E156G (GAG→GGG) | ydhX ← | 4Fe‑4S dicluster domain‑containing protein |
| RA | 1,752,926 | C→T | Q19Q (CAG→CAA) | ldtE ← | L,D‑transpeptidase LdtE |
| RA | 1,785,565 | T→C | *238* (TAA→TGA) | ydiV ← | anti‑FlhDC factor |
| RA | 1,799,085 | T→C | pseudogene (1735/1900 nt) | espL1 → | type III secretion system effector EspL1 |
| RA | 1,809,775 | A→T | D551V (GAT→GTT) | katE → | catalase HPII |
| RA | 1,820,976 | C→T | A69T (GCG→ACG) | astE ← | succinylglutamate desuccinylase |
| RA | 1,891,283 | A→G | D32G (GAT→GGT) | sdaA → | L‑serine ammonia‑lyase |
| RA | 1,895,566 | (C)6→7 | coding (277/1557 nt) | yoaE ← | CNNM family cation transport protein YoaE |
| RA | 1,913,346 | T→G | V527G (GTG→GGG) | yebT → | lipid‑binding membrane homeostasis protein YebT |
| RA | 1,927,446 | A→G | V472V (GTT→GTC) | edd ← | phosphogluconate dehydratase |
| RA | 1,977,975 | C→T | E192E (GAG→GAA) | araG ← | arabinose ABC transporter ATP‑binding protein AraG |
| RA | 2,014,277 | A→G | E237G (GAA→GGA) | fliM → | flagellar motor switch protein FliM |
| RA | 2,018,781 | A→G | intergenic (+87/‑211) | yodD → / → yedP | peroxide/acid resistance protein YodD/mannosyl‑3‑phosphoglycerate phosphatase‑related protein |
| RA | 2,057,587 | T→C | E121G (GAG→GGG) | cobT ← | nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
| RA | 2,068,298 | A→C | A13A (GCA→GCC) | BW25113_RS10450 → | hypothetical protein |
| RA | 2,069,296 | A→G | E346G (GAA→GGA) | BW25113_RS10450 → | hypothetical protein |
| RA | 2,099,575 | A→G | F378S (TTC→TCC) | wzy ← | O16 family O‑antigen polymerase |
| RA | 2,115,376 | A→G | L362P (CTG→CCG) | cpsG ← | colanic acid biosynthesis phosphomannomutase CpsG |
| RA | 2,121,319 | G→A | V159V (GTC→GTT) | gmd ← | GDP‑mannose 4,6‑dehydratase |
| RA | 2,124,319 | G→A | P14L (CCG→CTG) | wcaD ← | colanic acid polymerase WcaD |
| RA | 2,139,649 | A→G | E968G (GAA→GGA) | dgcE → | diguanylate cyclase |
| RA | 2,142,301 | A→G | T383A (ACG→GCG) | yegD → | molecular chaperone |
| RA | 2,146,283 | C→T | E109E (GAG→GAA) | yegL ← | VWA domain‑containing protein |
| RA | 2,158,576 | C→T | intergenic (+97/‑94) | baeR → / → yegP | two‑component system response regulator BaeR/YegP family protein |
| RA | 2,176,075 | A→G | I62I (ATT→ATC) | yegW ← | GntR family transcriptional regulator |
| RA | 2,190,509 | T→C | pseudogene (557/3796 nt) | BW25113_RS25680 → | WGR and DUF4132 domain‑containing protein |
| RA | 2,217,891 | C→A | S153S (TCG→TCT) | pbpG ← | D‑alanyl‑D‑alanine endopeptidase |
| RA | 2,245,489 | C→T | A104V (GCG→GTG) | yeiI → | sugar kinase |
| RA | 2,250,936 | G→A | A304V (GCC→GTC) | psuG ← | pseudouridine‑5'‑phosphate glycosidase |
| RA | 2,328,749 | A→G | S459P (TCC→CCC) | yfaA ← | DUF2138 domain‑containing protein |
| RA | 2,351,422 | A→C | pseudogene (140/198 nt) | BW25113_RS11725 → | hypothetical protein |
| RA | 2,368,479 | T→C | I2V (ATC→GTC) *321W (TGA→TGG) |
menE ← menC ← |
o‑succinylbenzoate‑‑CoA ligase o‑succinylbenzoate synthase |
| RA | 2,370,899 | A→T | V58D (GTC→GAC) | menH ← | 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase |
| RA | 2,371,693 | A→G | I349T (ATC→ACC) | menD ← | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| RA | 2,376,303 | (A)8→7 | coding (112/1212 nt) | elaD → | deubiquitinase ElaD |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 2,400,959 | A→C | intergenic (‑839/‑81) | lrhA ← / → alaA | transcriptional regulator LrhA/alanine transaminase AlaA |
| RA | 2,401,096 | T→C | G19G (GGT→GGC) | alaA → | alanine transaminase AlaA |
| RA | 2,441,796 | A→C | W42G (TGG→GGG) | prmB ← | 50S ribosomal protein L3 N(5)‑glutamine methyltransferase |
| RA | 2,448,105 | G→A | pseudogene (376/2646 nt) | yfcU ← | fimbrial usher protein YfcU |
| RA | 2,451,709 | G→T | S310R (AGC→AGA) | fadJ ← | fatty acid oxidation complex subunit alpha FadJ |
| RA | 2,453,267 | T→C | T228A (ACT→GCT) | fadI ← | acetyl‑CoA C‑acyltransferase FadI |
| RA | 2,464,440 | T→C | pseudogene (147/291 nt) | BW25113_RS12275 → | tail fiber assembly protein |
| RA | 2,484,113 | A→G | S439S (TCT→TCC) | oxc ← | oxalyl‑CoA decarboxylase |
| RA | 2,497,341 | (C)5→4 | coding (624/2496 nt) | ptsP ← | phosphoenolpyruvate‑‑protein phosphotransferase |
| RA | 2,519,318 | G→C | R300G (CGG→GGG) | yfeR ← | LysR family transcriptional regulator |
| RA | 2,521,249 | A→C | K315N (AAA→AAC) | yfeH → | bile acid:sodium symporter |
| RA | 2,557,468 | A→T | N44Y (AAC→TAC) | BW25113_RS12770 → | hypothetical protein |
| RA | 2,569,373 | A→G | intergenic (‑209/+84) | eutS ← / ← maeB | ethanolamine utilization microcompartment protein EutS/NADP‑dependent oxaloacetate‑decarboxylating malate dehydrogenase |
| RA | 2,575,962 | T→C | S59G (AGC→GGC) | ypfG ← | DUF1176 domain‑containing protein |
| RA | 2,580,168 | A→G | E360G (GAA→GGA) | narQ → | nitrate/nitrite two‑component system sensor histidine kinase NarQ |
| RA | 2,590,869 | Δ1 bp | coding (109/714 nt) | purC ← | phosphoribosylaminoimidazolesuccinocarboxamide synthase |
| RA | 2,595,868 | T→C | L231S (TTG→TCG) | hyfB → | hydrogenase 4 subunit B |
| RA | 2,625,832 | T→C | Q21Q (CAA→CAG) | guaA ← | glutamine‑hydrolyzing GMP synthase |
| RA | 2,631,737 | A→G | I92T (ATC→ACC) | bamB ← | outer membrane protein assembly factor BamB |
| RA | 2,636,307 | A→G | intergenic (‑104/+181) | rodZ ← / ← rlmN | cytoskeleton protein RodZ/bifunctional tRNA (adenosine(37)‑C2)‑methyltransferase TrmG/ribosomal RNA large subunit methyltransferase RlmN |
| RA | 2,667,151 | A→G | intergenic (+24/+24) | yphA → / ← yphB | DoxX family protein/aldose 1‑epimerase |
| RA | 2,700,943 | C→T | S73N (AGC→AAC) | rseC ← | SoxR‑reducing system protein RseC |
| RA | 2,705,165 | G→A | A463T (GCC→ACC) | nadB → | L‑aspartate oxidase |
| RA | 2,716,348 | A→G | D88G (GAC→GGC) | pssA → | CDP‑diacylglycerol‑‑serine O‑phosphatidyltransferase |
| RA | 2,718,722 | A→G | L128L (CTT→CTC) | kgtP ← | alpha‑ketoglutarate permease |
| RA | 2,718,745 | T→G | T121P (ACG→CCG) | kgtP ← | alpha‑ketoglutarate permease |
| RA | 2,724,669 | T→G | intergenic (‑153/+290) | BW25113_RS13535 ← / ← clpB | 16S ribosomal RNA/ATP‑dependent chaperone ClpB |
| RA | 2,724,674 | T→C | intergenic (‑158/+285) | BW25113_RS13535 ← / ← clpB | 16S ribosomal RNA/ATP‑dependent chaperone ClpB |
| RA | 2,727,607 | A→G | intergenic (‑75/+55) | clpB ← / ← pgeF | ATP‑dependent chaperone ClpB/purine nucleoside phosphorylase YfiH |
| RA | 2,732,532 | A→G | D299D (GAT→GAC) | tyrA ← | bifunctional chorismate mutase/prephenate dehydrogenase |
| RA | 2,761,884 | T→C | R272R (CGT→CGC) | yfjP → | GTPase family protein |
| RA | 2,762,893 | T→C | intergenic (+48/‑169) | yfjQ → / → yfjR | DUF932 domain‑containing protein/WYL domain‑containing protein |
| RA | 2,775,752 | (C)5→4 | coding (334/4581 nt) | ypjA ← | adhesin‑like autotransporter YpjA/EhaD |
| RA | 2,778,322 | T→A | pseudogene (49/1374 nt) | BW25113_RS25705 ← | DUF5507 domain‑containing protein |
| RA | 2,781,609 | T→C | pseudogene (1854/2253 nt) | BW25113_RS26005 → | alpha‑amylase family glycosyl hydrolase |
| RA | 2,867,513 | A→G | D422D (GAT→GAC) | cysN ← | sulfate adenylyltransferase subunit CysN |
| RA | 2,894,306 | T→G | V119G (GTG→GGG) | yqcE → | MFS transporter |
| RA | 2,897,407 | A→C | intergenic (+674/+699) | ygcE → / ← queE | FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| RA | 2,901,362 | A→G | intergenic (‑62/+26) | eno ← / ← pyrG | phosphopyruvate hydratase/CTP synthase (glutamine hydrolyzing) |
| RA | 2,909,267 | G→A | K284K (AAG→AAA) | barA → | two‑component sensor histidine kinase BarA |
| RA | 2,910,284 | A→G | K623K (AAA→AAG) | barA → | two‑component sensor histidine kinase BarA |
| RA | 2,919,491 | A→G | D262G (GAC→GGC) | queF → | NADPH‑dependent 7‑cyano‑7‑deazaguanine reductase QueF |
| RA | 2,923,200 | A→G | D89G (GAT→GGT) | sdaB → | L‑serine ammonia‑lyase II |
| RA | 2,932,567 | T→C | R107R (CGT→CGC) | fucU → | L‑fucose mutarotase |
| RA | 2,972,598 | A→G | R73R (CGA→CGG) | lysR → | DNA‑binding transcriptional regulator LysR |
| RA | 2,976,301 | T→C | E106G (GAA→GGA) | kduD ← | 2‑dehydro‑3‑deoxy‑D‑gluconate 5‑dehydrogenase KduD |
| RA | 2,982,682 | (A)8→7 | coding (20/483 nt) | BW25113_RS14815 → | hypothetical protein |
| RA | 2,985,850 | A→G | D133G (GAT→GGT) | ygeH → | HilA family transcriptional regulator YgeH |
| RA | 2,999,490 | T→C | intergenic (‑345/‑134) | ygeV ← / → ygeW | sigma‑54‑dependent Fis family transcriptional regulator/knotted carbamoyltransferase YgeW |
| RA | 2,999,765 | C→A | R48S (CGT→AGT) | ygeW → | knotted carbamoyltransferase YgeW |
| RA | 3,005,890 | C→A | intergenic (+138/+83) | arcC → / ← yqeB | carbamate kinase/selenium‑dependent molybdenum cofactor biosynthesis protein YqeB |
| RA | 3,015,364 | T→C | V230V (GTT→GTC) | xdhD → | molybdopterin‑dependent oxidoreductase Mo/Fe‑S‑binding subunit |
| RA | 3,034,841 | A→C | H57P (CAC→CCC) | ygfZ → | tRNA‑modifying protein YgfZ |
| RA | 3,050,507 | A→G | intergenic (‑199/+30) | ibsC ← / ← serA | type I toxin‑antitoxin system toxin IbsC/phosphoglycerate dehydrogenase |
| RA | 3,063,057 | A→T | I37N (ATC→AAC) | mscS ← | small‑conductance mechanosensitive channel MscS |
| RA | 3,082,721 | T→C | V360A (GTC→GCC) | galP → | galactose/proton symporter |
| RA | 3,085,483 | A→T | I83F (ATC→TTC) | gshB → | glutathione synthase |
| RA | 3,086,782 | G→A | A163T (GCC→ACC) | yqgE → | YqgE/AlgH family protein |
| RA | 3,095,990 | (C)5→4 | coding (222/720 nt) | trmB ← | tRNA (guanosine(46)‑N7)‑methyltransferase TrmB |
| RA | 3,100,032 | C→T | C320C (TGC→TGT) | nupG → | nucleoside permease NupG |
| RA | 3,168,157 | A→T | I200N (ATC→AAC) | parE ← | DNA topoisomerase IV subunit B |
| RA | 3,223,174 | A→T | I310F (ATC→TTC) | ygjK → | alpha‑glucosidase |
| RA | 3,266,228 | C→T | G230D (GGC→GAC) | garL ← | 2‑dehydro‑3‑deoxyglucarate aldolase |
| RA | 3,286,821 | C→T | A21A (GCC→GCT) | lpoA → | penicillin‑binding protein activator LpoA |
| RA | 3,297,285 | G→T | G160V (GGC→GTC) | yhbW → | luciferase‑like monooxygenase |
| RA | 3,300,885 | C→T | G112D (GGC→GAC) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | 3,310,402 | T→A | I162F (ATC→TTC) | nusA ← | transcription termination factor NusA |
| RA | 3,312,159 | C→T | A55V (GCG→GTG) | argG → | argininosuccinate synthase |
| RA | 3,353,444 | C→A | G296G (GGC→GGA) | gltD → | glutamate synthase subunit GltD |
| RA | 3,357,838 | T→C | V558A (GTC→GCC) | yhcD → | fimbrial biogenesis outer membrane usher protein |
| RA | 3,366,821 | T→C | I39V (ATC→GTC) | nanA ← | N‑acetylneuraminate lyase |
| RA | 3,394,698 | T→C | intergenic (‑252/+53) | mreB ← / ← csrD | rod shape‑determining protein MreB/RNase E specificity factor CsrD |
| RA | 3,403,270 | A→G | E281G (GAA→GGA) | prmA → | 50S ribosomal protein L11 methyltransferase |
| RA | 3,413,569 | T→C | I26T (ATC→ACC) | yhdX → | amino acid ABC transporter permease |
| RA | 3,429,447 | T→G | G294G (GGT→GGG) | rsmB → | 16S rRNA (cytosine(967)‑C(5))‑methyltransferase RsmB |
| RA | 3,452,746 | G→T | G350V (GGC→GTC) | gspE → | type II secretion system ATPase GspE |
| RA | 3,460,220 | Δ1 bp | coding (131/195 nt) | bfd ← | bacterioferritin‑associated ferredoxin |
| RA | 3,467,417 | A→G | pseudogene (24/468 nt) | rpsG ← | 30S ribosomal protein S7 |
| RA | 3,486,387 | T→C | F154S (TTT→TCT) | tsgA → | MFS transporter TsgA |
| RA | 3,486,985 | A→C | E353D (GAA→GAC) | tsgA → | MFS transporter TsgA |
| RA | 3,501,576 | T→C | E125G (GAG→GGG) | php ← | phosphotriesterase‑related protein |
| RA | 3,517,393 | T→C | D388D (GAT→GAC) | mrcA → | peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcA |
| RA | 3,521,284 | A→G | D486G (GAT→GGT) | igaA → | intracellular growth attenuator protein IgaA |
| RA | 3,539,325 | C→T | L115L (CTG→TTG) | nfuA → | Fe‑S biogenesis protein NfuA |
| RA | 3,540,121 | C→T | G68G (GGC→GGT) | gntT → | gluconate transporter |
| RA | 3,543,436 | T→C | intergenic (‑7/+3) | malQ ← / ← malP | 4‑alpha‑glucanotransferase/maltodextrin phosphorylase |
| RA | 3,562,031 | C→A | A220S (GCC→TCC) | glgC ← | glucose‑1‑phosphate adenylyltransferase |
| RA | 3,576,651 | T→C | I85T (ATT→ACT) | BW25113_RS17825 → | YrhA family protein |
| RA | 3,595,866 | A→G | I81T (ATT→ACT) | ftsE ← | cell division ATP‑binding protein FtsE |
| RA | 3,637,299 | T→C | E415G (GAA→GGA) | prlC ← | oligopeptidase A |
| RA | 3,655,663 | G→A | K630K (AAG→AAA) | mdtF → | multidrug efflux pump RND permease MdtF |
| RA | 3,660,392 | Δ1 bp | coding (549/1401 nt) | gadA ← | glutamate decarboxylase |
| RA | 3,674,379 | G→T | H308N (CAT→AAT) | yhjJ ← | pitrilysin family protein |
| RA | 3,705,327 | A→G | L14P (CTC→CCC) | yhjX ← | MFS transporter |
| RA | 3,706,510 | A→G | E20G (GAG→GGG) | tag → | DNA‑3‑methyladenine glycosylase I |
| RA | 3,708,729 | C→T | T342T (ACG→ACA) | bisC ← | biotin sulfoxide reductase |
| RA | 3,710,430 | C→T | A175V (GCG→GTG) | yiaD → | OmpA family lipoprotein |
| RA | 3,724,067 | T→C | N20S (AAC→AGC) | xylA ← | xylose isomerase |
| RA | 3,750,235 | T→C | E318G (GAA→GGA) | yiaY ← | L‑threonine dehydrogenase |
| RA | 3,753,672 | G→A | A313V (GCC→GTC) | selA ← | L‑seryl‑tRNA(Sec) selenium transferase |
| RA | 3,766,062 | T→C | I141T (ATC→ACC) | mtlA → | PTS mannitol transporter subunit IICBA |
| RA | 3,781,002 | A→G | T269A (ACG→GCG) | envC → | murein hydrolase activator EnvC |
| RA | 3,805,353 | T→C | E189E (GAA→GAG) | radC ← | DNA repair protein RadC |
| RA | 3,816,198 | C→T | L147L (CTG→TTG) | spoT → | bifunctional GTP diphosphokinase/guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| RA | 3,828,209 | T→A | I361F (ATC→TTC) | yicJ ← | glycoside‑pentoside‑hexuronide family transporter |
| RA | 3,829,894 | (C)6→5 | pseudogene (140/162 nt) | BW25113_RS26245 → | virulence RhuM family protein |
| RA | 3,845,367 | T→C | M260V (ATG→GTG) | ilvB ← | acetolactate synthase large subunit |
| RA | 3,845,459 | A→C | V229G (GTG→GGG) | ilvB ← | acetolactate synthase large subunit |
| RA | 3,853,538 | T→C | intergenic (‑62/‑105) | yidK ← / → yidL | solute:sodium symporter family transporter/AraC family transcriptional regulator |
| RA | 3,858,886 | T→C | T250A (ACC→GCC) | yidE ← | putative transporter |
| RA | 3,883,081 | T→G | L331R (CTG→CGG) | tnaA → | tryptophanase |
| RA | 3,913,243 | A→C | V174G (GTC→GGC) | atpH ← | F0F1 ATP synthase subunit delta |
| RA | 3,914,592 | T→C | intergenic (‑43/+4) | atpE ← / ← atpB | F0F1 ATP synthase subunit C/F0F1 ATP synthase subunit A |
| RA | 3,931,799 | T→C | N71N (AAT→AAC) | rbsR → | ribose operon transcriptional repressor RbsR |
| RA | 3,935,427 | +G | noncoding (260/1542 nt) | BW25113_RS19520 → | 16S ribosomal RNA |
| RA | 3,946,052 | T→C | F70S (TTC→TCC) | ilvE → | branched‑chain‑amino‑acid transaminase |
| RA | 3,961,670 | T→G | V132G (GTG→GGG) | wecA → | UDP‑N‑acetylglucosamine‑‑undecaprenyl‑phosphate N‑acetylglucosaminephosphotransferase |
| RA | 3,994,324 | A→G | V31V (GTT→GTC) | yigE ← | phosphodiester glycosidase family protein |
| RA | 3,994,362 | T→C | I19V (ATT→GTT) | yigE ← | phosphodiester glycosidase family protein |
| RA | 3,994,419 | T→C | intergenic (‑3/‑159) | yigE ← / → ysgD | phosphodiester glycosidase family protein/protein YsgD |
| RA | 3,995,690 | C→T | A302V (GCG→GTG) | corA → | magnesium/cobalt transporter CorA |
| RA | 4,001,645 | C→T | R177C (CGC→TGC) | rhtC → | threonine export protein RhtC |
| RA | 4,016,642 | A→C | I183L (ATT→CTT) | tatC → | Sec‑independent protein translocase subunit TatC |
| RA | 4,038,395 | T→C | N279N (AAT→AAC) | yihF → | YdgA family protein |
| RA | 4,041,206 | G→A | G294D (GGC→GAC) | polA → | DNA polymerase I |
| RA | 4,062,410 | G→T | P76Q (CCG→CAG) | yihQ ← | sulfoquinovosidase |
| RA | 4,064,803 | T→C | D105G (GAT→GGT) | yihS ← | sulfoquinovose isomerase |
| RA | 4,077,063 | T→A | D707V (GAT→GTT) | fdnG ← | formate dehydrogenase‑N subunit alpha |
| RA | 4,078,866 | C→T | S106N (AGC→AAC) | fdnG ← | formate dehydrogenase‑N subunit alpha |
| RA | 4,078,948 | C→A | E79* (GAA→TAA) | fdnG ← | formate dehydrogenase‑N subunit alpha |
| RA | 4,081,683 | C→T | E511E (GAG→GAA) | frvR ← | putative frv operon regulatory protein |
| RA | 4,140,022 | T→C | I58V (ATC→GTC) | eptC ← | phosphoethanolamine transferase CptA |
| RA | 4,141,321 | (T)5→4 | coding (1706/2652 nt) | ppc ← | phosphoenolpyruvate carboxylase |
| RA | 4,222,007 | A→C | G385G (GGT→GGG) | lysC ← | lysine‑sensitive aspartokinase 3 |
| RA | 4,257,469 | T→C | F143S (TTC→TCC) | tyrB → | aromatic amino acid transaminase |
| RA | 4,263,842 | T→G | intergenic (‑43/‑211) | uvrA ← / → ssb1 | excinuclease ABC subunit UvrA/single‑stranded DNA‑binding protein SSB1 |
| RA | 4,272,855 | A→G | L50P (CTC→CCC) | espX5 ← | T3SS effector pentapeptide repeat protein EspX5 |
| RA | 4,324,872 | T→G | Y179S (TAC→TCC) | eptA ← | phosphoethanolamine transferase EptA |
| RA | 4,359,148 | G→A | A361V (GCA→GTA) | yjeH ← | L‑methionine/branched‑chain amino acid transporter |
| RA | 4,443,731 | C→T | A111V (GCC→GTC) | yjfF → | sugar ABC transporter permease YjfF |
| RA | 4,445,051 | T→G | T126P (ACC→CCC) | fbp ← | class 1 fructose‑bisphosphatase |
| RA | 4,469,838 | C→T | L98F (CTT→TTT) | yjgN → | YjgN family protein |
| RA | 4,516,576 | A→G | Y44H (TAT→CAT) | sgcR ← | DeoR/GlpR family DNA‑binding transcription regulator |
| RA | 4,525,950 | T→A | intergenic (+102/+166) | yjhR → / ← BW25113_RS26295 | helicase YjhR/HNH endonuclease |
| RA | 4,527,329 | A→G | L28P (CTG→CCG) | nanS ← | 9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase |
| RA | 4,528,751 | T→C | T190A (ACG→GCG) | nanC ← | N‑acetylneuraminic acid outer membrane channel NanC |
| RA | 4,534,382 | C→T | P88S (CCT→TCT) | fimC → | type 1 fimbria chaperone FimC |
| RA | 4,585,319 | Δ1 bp | coding (350/915 nt) | lgoR ← | GntR family transcriptional regulator |
| RA | 4,616,195 | A→G | E156G (GAA→GGA) | radA → | DNA repair protein RadA |
| RA | 4,616,725 | C→T | L333L (CTG→TTG) | radA → | DNA repair protein RadA |
| RA | 4,630,135 | A→G | intergenic (‑12/‑84) | arcA ← / → BW25113_RS22930 | two‑component system response regulator ArcA/hypothetical protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 295786 | 295852 | 67 | 15 [14] | [14] 15 | paoC | aldehyde oxidoreductase molybdenum‑binding subunit PaoC |
| * | * | ÷ | NZ_CP009273 | 356947 | 357592 | 646 | 19 [13] | [12] 15 | lacA | lacA |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | 74 (1.160) | 99 (1.550) | 50/240 | 0.1 | 57.2% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | NA (NA) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 6 (0.090) | 45 (0.810) | 33/208 | 0.3 | 90.7% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 4 (0.070) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 6 (0.090) | 45 (0.810) | 35/208 | 0.3 | 90.7% | coding (305/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | = 1205058 | 4 (0.070) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 1390700 = | NA (NA) | 47 (0.740) | 32/240 | 0.6 | 50.5% | coding (332/981 nt) | BW25113_RS06980 | IS5‑like element IS5 family transposase |
| ? | NZ_CP009273 | 1422137 = | 46 (0.720) | coding (847/981 nt) | BW25113_RS07180 | IS5‑like element ISKpn26 family transposase | |||||