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 | 49,736 | A→T | intergenic (+105/‑87) | kefC → / → folA | glutathione‑regulated potassium‑efflux system protein KefC/type 3 dihydrofolate reductase |
| RA | 49,903 | T→G | D27E (GAT→GAG) | folA → | type 3 dihydrofolate reductase |
| RA | 50,280 | T→C | F153S (TTT→TCT) | folA → | type 3 dihydrofolate reductase |
| RA | 108,362 | A→G | F242S (TTC→TCC) | zapD ← | cell division protein ZapD |
| RA | 115,488 | T→C | F90S (TTC→TCC) | ampD → | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| RA | 115,628 | A→C | T137P (ACG→CCG) | ampD → | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| RA | 139,618 | A→G | E118G (GAA→GGA) | yadG → | ABC transporter ATP‑binding protein |
| RA | 209,716 | T→C | I300T (ATC→ACC) | tilS → | tRNA lysidine(34) synthetase TilS |
| RA | 221,335 | T→C | noncoding (1078/1542 nt) | BW25113_RS01010 → | 16S ribosomal RNA |
| RA | 232,840 | T→A | V96E (GTG→GAG) | dnaQ → | DNA polymerase III subunit epsilon |
| RA | 259,276 | A→G | G35G (GGT→GGC) | ykfI ← | type IV toxin‑antitoxin system toxin YkfI |
| RA | 264,689 | (A)5→4 | intergenic (‑18/+311) | ykfA ← / ← perR | GTPase family protein/LysR substrate‑binding domain‑containing protein |
| RA | 297,509 | G→C | G30G (GGC→GGG) | paoB ← | aldehyde oxidoreductase FAD‑binding subunit PaoB |
| RA | 340,444 | (A)5→4 | coding (558/816 nt) | BW25113_RS01680 → | hypothetical protein |
| RA | 354,025 | T→C | E126G (GAA→GGA) | cynR ← | transcriptional regulator CynR |
| RA | 386,045 | T→C | pseudogene (339/1527 nt) | BW25113_RS01915 → | outer membrane autotransporter barrel domain‑containing protein |
| RA | 444,519 | G→A | R527C (CGT→TGT) | cyoB ← | cytochrome o ubiquinol oxidase subunit I |
| RA | 465,464 | T→C | S380P (TCG→CCG) | mdlA → | SmdA family multidrug ABC transporter permease/ATP‑binding protein |
| RA | 508,601 | (C)6→7 | coding (570/1293 nt) | ybaT → | APC family permease |
| RA | 539,975 | A→G | D258D (GAT→GAC) | allC ← | allantoate deiminase |
| RA | 554,427 | A→G | intergenic (+217/‑3) | fimA → / → fimC | type 1 fimbrial major subunit FimA/type 1 fimbria chaperone FimC |
| RA | 601,986 | A→G | F285S (TTC→TCC) | ybdK ← | YbdK family carboxylate‑amine ligase |
| RA | 650,302 | A→G | F375L (TTT→CTT) | dcuC ← | anaerobic C4‑dicarboxylate transporter DcuC |
| RA | 661,892 | A→C | G594G (GGT→GGG) | mrdA ← | peptidoglycan DD‑transpeptidase MrdA |
| RA | 674,442 | T→G | T141P (ACT→CCT) | ybeT ← | tetratricopeptide repeat protein |
| RA | 715,942 | A→C | intergenic (‑26/+232) | speF ← / ← BW25113_RS26090 | ornithine decarboxylase SpeF/leader peptide SpeFL |
| RA | 802,549 | T→G | T63T (ACA→ACC) | ybhC ← | putative acyl‑CoA thioester hydrolase |
| RA | 858,839 | A→G | D43D (GAT→GAC) | ybiY ← | glycyl‑radical enzyme activating protein |
| RA | 876,371 | T→C | D63D (GAT→GAC) | dacC → | serine‑type D‑Ala‑D‑Ala carboxypeptidase |
| RA | 950,036 | (T)5→4 | intergenic (‑114/+292) | focA ← / ← ycaO | formate transporter FocA/30S ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| RA | 951,809 | T→G | T94P (ACC→CCC) | ycaO ← | 30S ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| RA | 979,260 | T→C | I52T (ATC→ACC) | gloC → | hydroxyacylglutathione hydrolase GloC |
| RA | 1,021,663 | (A)5→4 | coding (1737/2055 nt) | helD → | DNA helicase IV |
| RA | 1,054,234 | A→G | E232G (GAA→GGA) | torC → | pentaheme c‑type cytochrome TorC |
| RA | 1,060,988 | (A)6→5 | intergenic (+240/‑53) | yccE → / → agp | YccE family protein/bifunctional glucose‑1‑phosphatase/inositol phosphatase |
| RA | 1,062,210 | T→C | G390G (GGT→GGC) | agp → | bifunctional glucose‑1‑phosphatase/inositol phosphatase |
| RA | 1,065,426 | T→G | T129P (ACC→CCC) | rutF ← | pyrimidine utilization flavin reductase protein F |
| RA | 1,076,727 | (T)5→4 | intergenic (+458/‑85) | putP → / → BW25113_RS05295 | sodium/proline symporter PutP/FTR1 family protein |
| RA | 1,110,952 | T→C | intergenic (‑6/+166) | mdtG ← / ← lpxL | multidrug efflux MFS transporter MdtG/kdo(2)‑lipid IV(A) lauroyltransferase |
| RA | 1,122,270 | (A)6→5 | coding (9/924 nt) | yceM → | Gfo/Idh/MocA family oxidoreductase |
| RA | 1,174,948 | T→C | H300H (CAT→CAC) | nagK → | N‑acetylglucosamine kinase |
| RA | 1,237,623 | (T)7→8 | coding (914/915 nt) | ldcA ← | muramoyltetrapeptide carboxypeptidase |
| RA | 1,240,670 | Δ1 bp | coding (55/441 nt) | BW25113_RS06225 → | hypothetical protein |
| RA | 1,246,706 | A→G | E62G (GAA→GGA) | dhaR → | dihydroxyacetone kinase operon transcriptional regulator DhaR |
| RA | 1,259,173 | A→G | T2A (ACC→GCC) | hemA → | glutamyl‑tRNA reductase |
| RA | 1,276,251 | Δ1 bp | coding (932/3744 nt) | narG → | nitrate reductase subunit alpha |
| RA | 1,300,524 | Δ1 bp | coding (504/1005 nt) | oppF → | murein tripeptide/oligopeptide ABC transporter ATP‑binding protein OppF |
| RA | 1,320,565 | G→A | Q521Q (CAG→CAA) | yciQ → | DUF2207 domain‑containing protein |
| RA | 1,325,886 | T→C | G194G (GGT→GGC) | topA → | type I DNA topoisomerase |
| RA | 1,331,016 | A→G | Y310C (TAT→TGT) | acnA → | aconitate hydratase AcnA |
| RA | 1,335,398 | A→G | D195G (GAT→GGT) | lapB → | lipopolysaccharide assembly protein LapB |
| RA | 1,336,062 | A→G | intergenic (+78/‑116) | lapB → / → pyrF | lipopolysaccharide assembly protein LapB/orotidine‑5'‑phosphate decarboxylase |
| RA | 1,392,826 | T→C | Q18Q (CAA→CAG) | uspE ← | universal stress protein UspE |
| RA | 1,394,163 | G→A | L111L (CTG→TTG) | ogt ← | methylated‑DNA‑‑[protein]‑cysteine S‑methyltransferase |
| RA | 1,402,000 | A→G | I18T (ATC→ACC) | dgcM ← | diguanylate cyclase DgcM |
| RA | 1,417,788 | (C)6→7 | coding (69/120 nt) | BW25113_RS26130 ← | hypothetical protein |
| RA | 1,423,602 | T→C | R99R (CGT→CGC) | stfR → | prophage tail fiber N‑terminal domain‑containing protein |
| RA | 1,431,536 | T→C | E1169G (GAA→GGA) | nifJ ← | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| RA | 1,434,377 | A→G | F222S (TTC→TCC) | nifJ ← | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| RA | 1,443,919 | T→A | D563V (GAT→GTT) | tynA ← | primary‑amine oxidase |
| RA | 1,454,774 | A→G | D16G (GAT→GGT) | paaI → | hydroxyphenylacetyl‑CoA thioesterase PaaI |
| RA | 1,499,566 | A→G | S258P (TCC→CCC) | ydcO ← | BenE family transporter YdcO |
| RA | 1,502,076 | A→G | N347D (AAC→GAC) | rlhA → | 23S rRNA 5‑hydroxycytidine C2501 synthase |
| RA | 1,503,965 | T→C | D67D (GAT→GAC) | hicB → | type II toxin‑antitoxin system antitoxin HicB |
| RA | 1,524,815 | T→C | intergenic (‑54/‑28) | BW25113_RS25600 ← / → BW25113_RS07655 | protein YncO/ISAs1 family transposase |
| RA | 1,531,275 | G→A | L98L (CTG→TTG) | narW ← | nitrate reductase molybdenum cofactor assembly chaperone |
| RA | 1,547,935 | A→G | V54A (GTA→GCA) | adhP ← | alcohol dehydrogenase AdhP |
| RA | 1,558,439 | A→G | Y518H (TAT→CAT) | dosP ← | oxygen‑sensing cyclic‑di‑GMP phosphodiesterase |
| RA | 1,562,985 | A→C | P32P (CCT→CCG) | digH ← | glycoside hydrolase family 10 protein |
| RA | 1,568,198 | A→G | F417S (TTC→TCC) | pqqL ← | insulinase family protein |
| RA | 1,573,157 | A→T | I148N (ATC→AAC) | yddA ← | ABC transporter ATP‑binding protein/permease |
| RA | 1,574,956 | (T)5→4 | coding (92/1158 nt) | ydeM ← | anaerobic sulfatase maturase |
| RA | 1,575,825 | A→T | D319E (GAT→GAA) | ydeN ← | sulfatase |
| RA | 1,576,388 | A→G | S132P (TCC→CCC) | ydeN ← | sulfatase |
| RA | 1,579,109 | A→C | G545G (GGT→GGG) | ydeP ← | acid resistance putative oxidoreductase YdeP |
| RA | 1,613,753 | (A)6→5 | coding (377/435 nt) | marR → | multiple antibiotic resistance transcriptional regulator MarR |
| RA | 1,632,437 | (T)7→6 | intergenic (‑71/+8) | BW25113_RS08135 ← / ← BW25113_RS25620 | hypothetical protein/hypothetical protein |
| RA | 1,634,151 | Δ1 bp | coding (164/534 nt) | rrrQ ← | lysozyme |
| RA | 1,649,476 | A→G | intergenic (‑78/+128) | rspA ← / ← ynfA | starvation‑sensing protein RspA/YnfA family protein |
| RA | 1,659,576 | T→C | F14S (TTC→TCC) | clcB → | voltage‑gated ClC‑type chloride channel ClcB |
| RA | 1,662,649 | T→G | H58P (CAC→CCC) | mlc ← | DNA‑binding transcriptional repressor Mlc |
| RA | 1,671,899 | T→G | T88P (ACG→CCG) | pntA ← | Re/Si‑specific NAD(P)(+) transhydrogenase subunit alpha |
| RA | 1,673,542 | A→G | K287E (AAG→GAG) | ydgH → | DUF1471 family protein YdgH |
| RA | 1,717,498 | G→C | G374A (GGC→GCC) | ydhK → | FUSC family protein |
| RA | 1,782,276 | T→G | V192G (GTG→GGG) | ppsR → | posphoenolpyruvate synthetase regulatory kinase/phosphorylase PpsR |
| RA | 1,803,201 | A→G | V97A (GTC→GCC) | yniB ← | YniB family protein |
| RA | 1,807,028 | T→C | E121G (GAA→GGA) | BW25113_RS09050 ← | hypothetical protein |
| RA | 1,812,807 | (C)7→8 | intergenic (‑50/+55) | celF ← / ← chbR | 6‑phospho‑beta‑glucosidase/transcriptional regulator ChbR |
| RA | 1,838,813 | T→C | I106V (ATT→GTT) | ynjI ← | DUF1266 domain‑containing protein |
| RA | 1,854,126 | T→C | M121V (ATG→GTG) | ydjK ← | MFS transporter |
| RA | 1,877,816 | T→C | pseudogene (408/1482 nt) | yeaV → | BCCT family transporter YeaV |
| RA | 1,903,061 | A→T | intergenic (‑38/‑121) | mgrB ← / → yobH | PhoP/PhoQ regulator MgrB/YobH family protein |
| RA | 1,934,547 | T→C | intergenic (‑97/+23) | lpxM ← / ← mepM | lauroyl‑Kdo(2)‑lipid IV(A) myristoyltransferase/murein DD‑endopeptidase MepM |
| RA | 1,965,782 | T→G | E389D (GAA→GAC) | tar ← | methyl‑accepting chemotaxis protein II |
| RA | 1,980,420 | A→G | G5G (GGA→GGG) | ftnB → | non‑heme ferritin‑like protein |
| RA | 2,003,480 | T→C | F60S (TTC→TCC) | yedK → | SOS response‑associated peptidase |
| RA | 2,038,183 | (T)5→4 | intergenic (+78/‑236) | BW25113_RS10330 → / → yeeJ | tRNA‑Asn/inverse autotransporter adhesin YeeJ |
| RA | 2,057,664 | T→C | G95G (GGA→GGG) | cobT ← | nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
| RA | 2,064,259 | T→G | V93G (GTG→GGG) | BW25113_RS10440 → | GTPase family protein |
| RA | 2,102,646 | T→C | G140G (GGA→GGG) | wzx ← | O16 family O‑antigen flippase |
| RA | 2,106,357 | T→G | A62A (GCA→GCC) | rfbB ← | dTDP‑glucose 4,6‑dehydratase |
| RA | 2,131,004 | A→G | intergenic (‑280/‑379) | wza ← / → yegH | polysaccharide export protein Wza/TerC family protein |
| RA | 2,159,340 | C→T | V64V (GTC→GTT) | yegQ → | tRNA 5‑hydroxyuridine modification protein YegQ |
| RA | 2,163,022 | Δ1 bp | coding (830/900 nt) | yegS → | lipid kinase YegS |
| RA | 2,174,381 | T→G | C270G (TGC→GGC) | yegU → | ADP‑ribosylglycohydrolase family protein |
| RA | 2,176,805 | T→G | D109A (GAC→GCC) | yegX ← | glycoside hydrolase family 25 protein |
| RA | 2,202,171 | G→C | W242C (TGG→TGC) | yehP → | VWA domain‑containing protein |
| RA | 2,220,044 | A→G | S236P (TCG→CCG) | yohF ← | SDR family oxidoreductase |
| RA | 2,229,956 | A→G | K405E (AAA→GAA) | preA → | NAD‑dependent dihydropyrimidine dehydrogenase subunit PreA |
| RA | 2,243,538 | A→G | T115A (ACC→GCC) | yeiH → | YeiH family protein |
| RA | 2,283,874 | Δ1 bp | intergenic (‑350/‑105) | BW25113_RS11435 ← / → narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP |
| RA | 2,284,519 | T→C | S181P (TCC→CCC) | narP → | nitrate/nitrite response regulator protein NarP |
| RA | 2,345,414 | T→G | H147P (CAC→CCC) | glpT ← | glycerol‑3‑phosphate transporter |
| RA | 2,366,540 | A→G | Y57C (TAT→TGT) | arnF → | 4‑amino‑4‑deoxy‑L‑arabinose‑phosphoundecaprenol flippase subunit ArnF |
| RA | 2,396,099 | G→C | A413G (GCC→GGC) | nuoC ← | NADH‑quinone oxidoreductase subunit C/D |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 2,410,868 | A→T | G103G (GGA→GGT) | yfcC → | putative basic amino acid antiporter YfcC |
| RA | 2,420,231 | C→G | A13P (GCC→CCC) | hisJ ← | histidine ABC transporter substrate‑binding protein HisJ |
| RA | 2,425,778 | T→C | E215G (GAA→GGA) | folC ← | bifunctional tetrahydrofolate synthase/dihydrofolate synthase |
| RA | 2,439,101 | T→C | K255E (AAG→GAG) | mepA ← | penicillin‑insensitive murein endopeptidase |
| RA | 2,492,743 | (A)5→4 | coding (594/1698 nt) | ypdA → | two‑component system sensor histidine kinase YpdA |
| RA | 2,505,777 | T→C | I137V (ATC→GTC) | mntH ← | Nramp family divalent metal transporter |
| RA | 2,526,050 | A→G | T95A (ACC→GCC) | cysK → | cysteine synthase A |
| RA | 2,536,106 | T→C | E261G (GAA→GGA) | cysP ← | thiosulfate/sulfate ABC transporter substrate‑binding protein CysP |
| RA | 2,554,121 | A→C | N169T (AAC→ACC) | BW25113_RS12740 → | hypothetical protein |
| RA | 2,661,508 | T→G | T250P (ACC→CCC) | hcaR ← | DNA‑binding transcriptional regulator HcaR |
| RA | 2,678,723 | A→C | G48G (GGT→GGG) | glyA ← | serine hydroxymethyltransferase |
| RA | 2,726,562 | (T)5→4 | coding (971/2574 nt) | clpB ← | ATP‑dependent chaperone ClpB |
| RA | 2,739,096 | T→C | E61G (GAA→GGA) | rimM ← | ribosome maturation factor RimM |
| RA | 2,751,237 | A→G | V241V (GTT→GTC) | BW25113_RS13685 ← | hypothetical protein |
| RA | 2,753,169 | T→C | S276P (TCA→CCA) | yfjI → | YfjI family protein |
| RA | 2,763,617 | A→G | I186V (ATT→GTT) | yfjR → | WYL domain‑containing protein |
| RA | 2,778,934 | (T)6→5 | intergenic (‑564/+187) | BW25113_RS25705 ← / ← BW25113_RS13825 | DUF5507 domain‑containing protein/tRNA‑Ile |
| RA | 2,801,112 | A→C | T208P (ACC→CCC) | proX → | glycine betaine/L‑proline ABC transporter substrate‑binding protein ProX |
| RA | 2,818,451 | T→C | E162G (GAA→GGA) | mltB ← | lytic murein transglycosylase B |
| RA | 2,819,095 | T→C | intergenic (‑160/‑96) | mltB ← / → srlA | lytic murein transglycosylase B/PTS glucitol/sorbitol transporter subunit IIC |
| RA | 2,849,315 | A→C | Y540S (TAC→TCC) | flhA → | formate hydrogenlyase transcriptional activator FlhA |
| RA | 2,849,816 | T→C | E117G (GAA→GGA) | ygbA ← | nitrous oxide‑stimulated promoter family protein |
| RA | 2,859,998 | T→C | I305V (ATT→GTT) | rpoS ← | RNA polymerase sigma factor RpoS |
| RA | 2,882,413 | A→C | V349G (GTT→GGT) | cysI ← | assimilatory sulfite reductase (NADPH) hemoprotein subunit |
| RA | 2,888,711 | A→G | V143A (GTC→GCC) | ygcQ ← | electron transfer flavoprotein subunit alpha/FixB family protein |
| RA | 2,982,555 | T→C | F232S (TTC→TCC) | yqeI → | transcriptional regulator |
| RA | 3,011,010 | A→G | E531G (GAA→GGA) | ygfK → | putative selenate reductase subunit YgfK |
| RA | 3,098,336 | Δ1 bp | coding (545/1080 nt) | mltC → | membrane‑bound lytic murein transglycosylase MltC |
| RA | 3,103,871 | (A)7→6 | intergenic (+71/+78) | BW25113_RS15410 → / ← yghD | tRNA‑Phe/GspM family type II secretion system protein YghD |
| RA | 3,190,113 | T→G | intergenic (‑1/+47) | hldE ← / ← glnE | bifunctional D‑glycero‑beta‑D‑manno‑heptose‑7‑phosphate kinase/D‑glycero‑beta‑D‑manno‑heptose 1‑phosphate adenylyltransferase HldE/bifunctional [glutamate‑‑ammonia ligase]‑adenylyl‑L‑tyrosine phosphorylase/[glutamate‑‑ammonia‑ligase] adenylyltransferase |
| RA | 3,224,102 | T→C | F619S (TTC→TCC) | ygjK → | alpha‑glucosidase |
| RA | 3,273,721 | A→G | E49G (GAA→GGA) | agaV → | PTS N‑acetylgalactosamine transporter subunit IIB |
| RA | 3,347,494 | C→T | intergenic (‑85/‑590) | yhcC ← / → gltB | TIGR01212 family radical SAM protein/glutamate synthase large subunit |
| RA | 3,384,689 | Δ1 bp | coding (699/1446 nt) | tldD ← | metalloprotease TldD |
| RA | 3,458,386 | A→G | E369G (GAA→GGA) | gspL → | type II secretion system protein GspL |
| RA | 3,475,701 | T→C | S352P (TCG→CCG) | yheS → | ABC transporter ATP‑binding protein |
| RA | 3,535,339 | T→C | F525S (TTC→TCC) | feoB → | Fe(2+) transporter permease subunit FeoB |
| RA | 3,576,634 | A→G | R79R (CGA→CGG) | BW25113_RS17825 → | YrhA family protein |
| RA | 3,579,168 | T→C | E339G (GAA→GGA) | ggt ← | gamma‑glutamyltransferase |
| RA | 3,631,615 | (A)5→4 | coding (614/1500 nt) | pitA → | inorganic phosphate transporter PitA |
| RA | 3,649,376 | (T)5→4 | coding (277/327 nt) | hdeB ← | acid‑activated periplasmic chaperone HdeB |
| RA | 3,650,010 | (T)6→5 | coding (91/333 nt) | hdeA ← | acid‑activated periplasmic chaperone HdeA |
| RA | 3,715,736 | T→C | K674K (AAA→AAG) | glyS ← | glycine‑‑tRNA ligase subunit beta |
| RA | 3,717,969 | T→C | E237G (GAA→GGA) | glyQ ← | glycine‑‑tRNA ligase subunit alpha |
| RA | 3,786,467 | T→C | I193V (ATT→GTT) | yibB ← | protein YibB |
| RA | 3,786,991 | T→C | D18G (GAT→GGT) | yibB ← | protein YibB |
| RA | 3,791,182 | A→C | Y292S (TAC→TCC) | waaL → | O‑antigen ligase |
| RA | 3,798,416 | (T)8→7 | coding (61/936 nt) | rfaS ← | LPS core biosynthesis protein RfaS |
| RA | 3,896,621 | A→G | D147D (GAT→GAC) | bglB ← | 6‑phospho‑beta‑glucosidase BglB |
| RA | 3,898,828 | (T)5→4 | coding (130/1878 nt) | bglF ← | PTS beta‑glucoside transporter subunit IIABC |
| RA | 3,918,222 | T→G | N258H (AAC→CAC) | mnmG ← | tRNA uridine‑5‑carboxymethylaminomethyl(34) synthesis enzyme MnmG |
| RA | 4,073,163 | A→T | D26V (GAT→GTT) | BW25113_RS20185 → | hypothetical protein |
| RA | 4,084,653 | A→G | G358G (GGT→GGC) | frvB ← | PTS fructose‑like transporter subunit IIBC |
| RA | 4,117,071 | T→C | F44S (TTC→TCC) | rpmE → | 50S ribosomal protein L31 |
| RA | 4,153,816 | T→C | S84P (TCA→CCA) | btuB → | TonB‑dependent vitamin B12 receptor BtuB |
| RA | 4,180,586 | (A)7→6 | intergenic (+333/+77) | yjaZ → / ← thiH | heat‑shock protein C/2‑iminoacetate synthase ThiH |
| RA | 4,210,075 | T→C | F518L (TTT→CTT) | aceK → | bifunctional isocitrate dehydrogenase kinase/phosphatase |
| RA | 4,211,170 | (T)8→7 | coding (1246/2187 nt) | espL4 ← | type III secretion system effector EspL4 |
| RA | 4,215,724 | T→G | W657G (TGG→GGG) | metH → | methionine synthase |
| RA | 4,263,211 | T→C | K197E (AAA→GAA) | uvrA ← | excinuclease ABC subunit UvrA |
| RA | 4,306,692 | A→T | I115N (ATC→AAC) | phnM ← | alpha‑D‑ribose 1‑methylphosphonate 5‑triphosphate diphosphatase |
| RA | 4,338,978 | A→C | intergenic (‑417/+154) | dcuB ← / ← dcuR | anaerobic C4‑dicarboxylate transporter DcuB/two‑component system response regulator DcuR |
| RA | 4,367,563 | T→C | intergenic (‑24/+65) | blc ← / ← ampC | lipocalin Blc/BlaEC family class C beta‑lactamase |
| RA | 4,416,405 | A→G | intergenic (+31/+40) | rplI → / ← yjfZ | 50S ribosomal protein L9/DUF2686 family protein |
| RA | 4,459,020 | T→C | Y527H (TAC→CAC) | mgtA → | magnesium‑translocating P‑type ATPase |
| RA | 4,494,539 | T→C | F222S (TTC→TCC) | nanX → | MFS transporter |
| RA | 4,495,584 | A→G | K161E (AAA→GAA) | nanY → | 2,7‑anhydro‑N‑acetylneuraminate hydratase |
| RA | 4,527,151 | T→C | Q87Q (CAA→CAG) | nanS ← | 9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase |
| RA | 4,543,103 | A→G | E129G (GAA→GGA) | uxuB → | fructuronate reductase |
| RA | 4,573,665 | T→C | pseudogene (2914/3513 nt) | hsdR ← | type I restriction‑modification system endonuclease |
| RA | 4,593,447 | T→C | S52P (TCC→CCC) | yjjQ → | response regulator transcription factor |
| RA | 4,602,506 | T→A | D93E (GAT→GAA) | yjjU → | patatin family protein |
| RA | 4,613,222 | C→G | R238P (CGC→CCC) | lplA ← | lipoate‑‑protein ligase LplA |
| RA | 4,629,389 | (T)8→7 | intergenic (+42/+18) | creD → / ← arcA | cell envelope integrity protein CreD/two‑component system response regulator ArcA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356969 | 357574 | 606 | 2 [1] | [1] 3 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 380412 | 380420 | 9 | 6 [0] | [0] 2 | BW25113_RS01880/tauA | PIG‑L family deacetylase/taurine ABC transporter substrate‑binding protein |
| * | * | ÷ | NZ_CP009273 | 518578 | 518621 | 44 | 3 [1] | [1] 2 | ybbP/rhsD | ABC transporter permease/rhs element protein RhsD |
| * | * | ÷ | NZ_CP009273 | 564238 | 564265 | 28 | 3 [1] | [0] 3 | BW25113_RS25485 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 578873 | 578907 | 35 | 2 [1] | [0] 2 | BW25113_RS26085/appY | tail fiber assembly protein/DNA‑binding transcriptional activator AppY |
| * | * | ÷ | NZ_CP009273 | 578970 | 579063 | 94 | 3 [1] | [1] 2 | BW25113_RS26085/appY | tail fiber assembly protein/DNA‑binding transcriptional activator AppY |
| * | * | ÷ | NZ_CP009273 | 724396 | 724441 | 46 | 2 [1] | [0] 2 | kdpF/ybfA | K(+)‑transporting ATPase subunit F/YbfA family protein |
| * | * | ÷ | NZ_CP009273 | 724902 | 724954 | 53 | 2 [1] | [1] 2 | ybfA/rhsC | YbfA family protein/rhs element protein RhsC |
| * | * | ÷ | NZ_CP009273 | 766526 | 766588 | 63 | 2 [1] | [0] 3 | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
| * | * | ÷ | NZ_CP009273 | 896118 | 896157 | 40 | 2 [1] | [1] 2 | artJ/artM | ABC transporter substrate‑binding protein ArtJ/arginine ABC transporter permease ArtM |
| * | * | ÷ | NZ_CP009273 | 903006 | 903042 | 37 | 2 [1] | [0] 2 | ybjT | SDR family oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 993167 | 993278 | 112 | 2 [1] | [1] 4 | ssuE/elfA | NADPH‑dependent FMN reductase/fimbrial protein |
| * | * | ÷ | NZ_CP009273 | 1046664 | 1046669 | 6 | 3 [0] | [1] 2 | cspH/cspG | cold shock‑like protein CspH/cold shock protein CspG |
| * | * | ÷ | NZ_CP009273 | 1052505 | 1052535 | 31 | 2 [1] | [1] 2 | torT | TMAO reductase system periplasmic protein TorT |
| * | * | ÷ | NZ_CP009273 | 1060435 | 1060446 | 12 | 2 [1] | [1] 3 | yccE | YccE family protein |
| * | * | ÷ | NZ_CP009273 | 1088273 | 1088295 | 23 | 3 [0] | [1] 3 | pgaA/dgcT | poly‑beta‑1,6 N‑acetyl‑D‑glucosamine export porin PgaA/GGDEF domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1098794 | 1098879 | 86 | 3 [1] | [1] 3 | csgD/csgB | biofilm master transcriptional regulator CsgD/curli minor subunit CsgB |
| * | * | ÷ | NZ_CP009273 | 1164390 | 1164441 | 52 | 2 [1] | [1] 2 | comR/bhsA | TetR family copper‑responsive transcriptional repressor ComR/multiple stress resistance protein BhsA |
| * | * | ÷ | NZ_CP009273 | 1165713 | 1165755 | 43 | 2 [0] | [1] 2 | ldtC | L,D‑transpeptidase LdtC |
| * | * | ÷ | NZ_CP009273 | 1207529 | 1207691 | 163 | 2 [0] | [0] 2 | iraM/BW25113_RS25985 | anti‑adapter protein IraM/protein YmgK |
| * | * | ÷ | NZ_CP009273 | 1207870 | 1207916 | 47 | 3 [1] | [1] 2 | BW25113_RS25985/BW25113_RS25535 | protein YmgK/hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1229342 | 1229433 | 92 | 2 [1] | [1] 2 | nhaB | Na(+)/H(+) antiporter NhaB |
| * | * | ÷ | NZ_CP009273 | 1233016 | 1233021 | 6 | 2 [0] | [1] 3 | ycgB/dadA | SpoVR family protein/D‑amino acid dehydrogenase |
| * | * | ÷ | NZ_CP009273 | 1251739 | 1251743 | 5 | 2 [1] | [0] 2 | ycgV/ychF | autotransporter outer membrane beta‑barrel domain‑containing protein/redox‑regulated ATPase YchF |
| * | * | ÷ | NZ_CP009273 | 1280978 | 1280997 | 20 | 2 [0] | [1] 2 | narJ | nitrate reductase molybdenum cofactor assembly chaperone |
| * | * | ÷ | NZ_CP009273 | 1300400 | 1300408 | 9 | 2 [0] | [1] 2 | oppF | murein tripeptide/oligopeptide ABC transporter ATP‑binding protein OppF |
| * | * | ÷ | NZ_CP009273 | 1310568 | 1310598 | 31 | 4 [0] | [1] 2 | yciG/trpA | general stress protein/tryptophan synthase subunit alpha |
| * | * | ÷ | NZ_CP009273 | 1329154 | 1329164 | 11 | 3 [0] | [1] 9 | cysB/ymiA | HTH‑type transcriptional regulator CysB/YmiA family putative membrane protein |
| * | * | ÷ | NZ_CP009273 | 1329692 | 1329720 | 29 | 2 [1] | [1] 2 | [BW25113_RS06660] | [BW25113_RS06660] |
| * | * | ÷ | NZ_CP009273 | 1400064 | 1400105 | 42 | 2 [1] | [1] 2 | abgR/smrA | LysR family transcriptional regulator/DNA endonuclease SmrA |
| * | * | ÷ | NZ_CP009273 | 1459470 | 1459513 | 44 | 3 [1] | [0] 2 | [BW25113_RS25580] | [BW25113_RS25580] |
| * | * | ÷ | NZ_CP009273 | 1576807 | 1576843 | 37 | 2 [1] | [1] 2 | ydeN/ydeO | sulfatase/acid stress response transcriptional regulator YdeO |
| * | * | ÷ | NZ_CP009273 | 1940387 | 1940404 | 18 | 2 [0] | [1] 2 | yobI | stress response small protein YobI |
| * | * | ÷ | NZ_CP009273 | 1972752 | 1972753 | 2 | 31 [0] | [0] 2 | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| * | * | ÷ | NZ_CP009273 | 2097527 | 2097575 | 49 | 2 [1] | [1] 2 | wbbK | glycosyltransferase family 1 protein |
| * | * | ÷ | NZ_CP009273 | 2449301 | 2449321 | 21 | 2 [0] | [0] 2 | yfcV/sixA | fimbrial protein/phosphohistidine phosphatase SixA |
| * | * | ÷ | NZ_CP009273 | 2776963 | 2776971 | 9 | 3 [0] | [1] 2 | BW25113_RS24210/BW25113_RS25705 | recombinase family protein/DUF5507 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 2988506 | 2988549 | 44 | 2 [1] | [1] 2 | BW25113_RS14850/BW25113_RS26010 | response regulator transcription factor/hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 3348288 | 3348295 | 8 | 3 [1] | [0] 2 | gltB | glutamate synthase large subunit |
| * | * | ÷ | NZ_CP009273 | 3463377 | 3463405 | 29 | 2 [1] | [1] 2 | chiA/tuf | bifunctional chitinase/lysozyme/elongation factor Tu |
| * | * | ÷ | NZ_CP009273 | 4241481 | 4241505 | 25 | 2 [1] | [0] 3 | BW25113_RS20970 | SopA family protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 20 (0.970) | 14/166 | 0.3 | NA | 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 = | 16 (0.770) | 3 (0.180) | 3/134 | 1.4 | 20.1% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 11 (0.660) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1972751 | 0 (0.000) | 31 (1.500) | 20/166 | 0.1 | 100% | intergenic (‑297/‑483) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| ? | NZ_CP009273 | = 2283592 | NA (NA) | intergenic (‑68/‑387) | BW25113_RS11435/narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP | |||||