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→A | D27E (GAT→GAA) | folA → | type 3 dihydrofolate reductase |
| RA | 50,280 | T→C | F153S (TTT→TCT) | folA → | type 3 dihydrofolate reductase |
| RA | 108,362 | A→G | F242S (TTC→TCC) | zapD ← | cell division protein ZapD |
| RA | 115,488 | T→C | F90S (TTC→TCC) | ampD → | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| RA | 115,628 | A→C | T137P (ACG→CCG) | ampD → | 1,6‑anhydro‑N‑acetylmuramyl‑L‑alanine amidase AmpD |
| RA | 139,618 | A→G | E118G (GAA→GGA) | yadG → | ABC transporter ATP‑binding protein |
| RA | 209,716 | T→C | I300T (ATC→ACC) | tilS → | tRNA lysidine(34) synthetase TilS |
| RA | 221,335 | T→C | noncoding (1078/1542 nt) | BW25113_RS01010 → | 16S ribosomal RNA |
| RA | 232,840 | T→A | V96E (GTG→GAG) | dnaQ → | DNA polymerase III subunit epsilon |
| RA | 264,689 | (A)5→4 | intergenic (‑18/+311) | ykfA ← / ← perR | GTPase family protein/LysR substrate‑binding domain‑containing protein |
| RA | 297,509 | G→C | G30G (GGC→GGG) | paoB ← | aldehyde oxidoreductase FAD‑binding subunit PaoB |
| RA | 340,444 | (A)5→4 | coding (558/816 nt) | BW25113_RS01680 → | hypothetical protein |
| RA | 354,025 | T→C | E126G (GAA→GGA) | cynR ← | transcriptional regulator CynR |
| RA | 386,045 | T→C | pseudogene (339/1527 nt) | BW25113_RS01915 → | outer membrane autotransporter barrel domain‑containing protein |
| RA | 444,519 | G→A | R527C (CGT→TGT) | cyoB ← | cytochrome o ubiquinol oxidase subunit I |
| RA | 448,331 | G→T | A224D (GCC→GAC) | ampG ← | muropeptide MFS transporter AmpG |
| RA | 465,464 | T→C | S380P (TCG→CCG) | mdlA → | SmdA family multidrug ABC transporter permease/ATP‑binding protein |
| RA | 508,601 | (C)6→7 | coding (570/1293 nt) | ybaT → | APC family permease |
| RA | 539,975 | A→G | D258D (GAT→GAC) | allC ← | allantoate deiminase |
| RA | 554,427 | A→G | intergenic (+217/‑3) | fimA → / → fimC | type 1 fimbrial major subunit FimA/type 1 fimbria chaperone FimC |
| RA | 575,614 | A→G | intergenic (+72/+93) | BW25113_RS02885 → / ← ylcI | hypothetical protein/YlcI/YnfO family protein |
| RA | 578,971 | (A)6→5 | intergenic (+380/‑166) | BW25113_RS26085 → / → appY | tail fiber assembly protein/DNA‑binding transcriptional activator AppY |
| RA | 579,943 | (T)8→7 | intergenic (+57/+193) | appY → / ← ompT | DNA‑binding transcriptional activator AppY/omptin family outer membrane protease OmpT |
| RA | 587,468 | A→C | D389E (GAT→GAG) | nrfB ← | cyclic di‑3',5'‑guanylate‑activated glycosyltransferase NrfB |
| RA | 601,986 | A→G | F285S (TTC→TCC) | ybdK ← | YbdK family carboxylate‑amine ligase |
| RA | 661,892 | A→C | G594G (GGT→GGG) | mrdA ← | peptidoglycan DD‑transpeptidase MrdA |
| RA | 674,442 | T→G | T141P (ACT→CCT) | ybeT ← | tetratricopeptide repeat protein |
| RA | 701,647 | G→A | P33P (CCG→CCA) | glnS → | glutamine‑‑tRNA ligase |
| RA | 802,549 | T→G | T63T (ACA→ACC) | ybhC ← | putative acyl‑CoA thioester hydrolase |
| RA | 879,010 | T→C | intergenic (‑166/‑119) | ybjG ← / → mdfA | undecaprenyl‑diphosphate phosphatase/multidrug efflux MFS transporter MdfA |
| RA | 901,740 | G→A | A157V (GCG→GTG) | ybjS ← | NAD(P)‑dependent oxidoreductase |
| RA | 951,809 | T→G | T94P (ACC→CCC) | ycaO ← | 30S ribosomal protein S12 methylthiotransferase accessory factor YcaO |
| RA | 979,260 | T→C | I52T (ATC→ACC) | gloC → | hydroxyacylglutathione hydrolase GloC |
| RA | 1,060,988 | (A)6→5 | intergenic (+240/‑53) | yccE → / → agp | YccE family protein/bifunctional glucose‑1‑phosphatase/inositol phosphatase |
| RA | 1,062,210 | T→C | G390G (GGT→GGC) | agp → | bifunctional glucose‑1‑phosphatase/inositol phosphatase |
| RA | 1,065,426 | T→G | T129P (ACC→CCC) | rutF ← | pyrimidine utilization flavin reductase protein F |
| RA | 1,076,727 | (T)5→4 | intergenic (+458/‑85) | putP → / → BW25113_RS05295 | sodium/proline symporter PutP/FTR1 family protein |
| RA | 1,110,952 | T→C | intergenic (‑6/+166) | mdtG ← / ← lpxL | multidrug efflux MFS transporter MdtG/kdo(2)‑lipid IV(A) lauroyltransferase |
| RA | 1,196,737 | (C)5→4 | coding (100/312 nt) | BW25113_RS25530 ← | hypothetical protein |
| RA | 1,215,948 | T→C | pseudogene (487/2243 nt) | BW25113_RS25990 → | autotransporter outer membrane beta‑barrel domain‑containing protein |
| RA | 1,240,670 | Δ1 bp | coding (55/441 nt) | BW25113_RS06225 → | hypothetical protein |
| RA | 1,259,173 | A→G | T2A (ACC→GCC) | hemA → | glutamyl‑tRNA reductase |
| RA | 1,276,251 | Δ1 bp | coding (932/3744 nt) | narG → | nitrate reductase subunit alpha |
| RA | 1,300,524 | Δ1 bp | coding (504/1005 nt) | oppF → | murein tripeptide/oligopeptide ABC transporter ATP‑binding protein OppF |
| RA | 1,325,886 | T→C | G194G (GGT→GGC) | topA → | type I DNA topoisomerase |
| RA | 1,331,016 | A→G | Y310C (TAT→TGT) | acnA → | aconitate hydratase AcnA |
| RA | 1,392,826 | T→C | Q18Q (CAA→CAG) | uspE ← | universal stress protein UspE |
| RA | 1,394,163 | G→A | L111L (CTG→TTG) | ogt ← | methylated‑DNA‑‑[protein]‑cysteine S‑methyltransferase |
| RA | 1,402,000 | A→G | I18T (ATC→ACC) | dgcM ← | diguanylate cyclase DgcM |
| RA | 1,417,788 | (C)6→7 | coding (69/120 nt) | BW25113_RS26130 ← | hypothetical protein |
| RA | 1,423,602 | T→C | R99R (CGT→CGC) | stfR → | prophage tail fiber N‑terminal domain‑containing protein |
| RA | 1,431,536 | T→C | E1169G (GAA→GGA) | nifJ ← | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| RA | 1,434,377 | A→G | F222S (TTC→TCC) | nifJ ← | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| RA | 1,438,627 | A→G | K440K (AAA→AAG) | ydbH → | YdbH family protein |
| RA | 1,454,774 | A→G | D16G (GAT→GGT) | paaI → | hydroxyphenylacetyl‑CoA thioesterase PaaI |
| RA | 1,499,566 | A→G | S258P (TCC→CCC) | ydcO ← | BenE family transporter YdcO |
| RA | 1,503,965 | T→C | D67D (GAT→GAC) | hicB → | type II toxin‑antitoxin system antitoxin HicB |
| RA | 1,505,430 | A→G | K391E (AAA→GAA) | ydcR → | PLP‑dependent aminotransferase family protein |
| RA | 1,524,815 | T→C | intergenic (‑54/‑28) | BW25113_RS25600 ← / → BW25113_RS07655 | protein YncO/ISAs1 family transposase |
| RA | 1,531,275 | G→A | L98L (CTG→TTG) | narW ← | nitrate reductase molybdenum cofactor assembly chaperone |
| RA | 1,547,935 | A→G | V54A (GTA→GCA) | adhP ← | alcohol dehydrogenase AdhP |
| RA | 1,558,439 | A→G | Y518H (TAT→CAT) | dosP ← | oxygen‑sensing cyclic‑di‑GMP phosphodiesterase |
| RA | 1,573,157 | A→T | I148N (ATC→AAC) | yddA ← | ABC transporter ATP‑binding protein/permease |
| RA | 1,575,825 | A→T | D319E (GAT→GAA) | ydeN ← | sulfatase |
| RA | 1,576,388 | A→G | S132P (TCC→CCC) | ydeN ← | sulfatase |
| RA | 1,579,109 | A→C | G545G (GGT→GGG) | ydeP ← | acid resistance putative oxidoreductase YdeP |
| RA | 1,613,753 | (A)6→5 | coding (377/435 nt) | marR → | multiple antibiotic resistance transcriptional regulator MarR |
| RA | 1,615,188 | A→C | S69R (AGT→AGG) | eamA ← | O‑acetylserine/cysteine exporter |
| RA | 1,626,268 | A→G | pseudogene (359/1368 nt) | ydfJ ← | MHS family MFS transporter |
| RA | 1,632,437 | (T)7→6 | intergenic (‑71/+8) | BW25113_RS08135 ← / ← BW25113_RS25620 | hypothetical protein/hypothetical protein |
| RA | 1,634,151 | Δ1 bp | coding (164/534 nt) | rrrQ ← | lysozyme |
| RA | 1,649,476 | A→G | intergenic (‑78/+128) | rspA ← / ← ynfA | starvation‑sensing protein RspA/YnfA family protein |
| RA | 1,659,576 | T→C | F14S (TTC→TCC) | clcB → | voltage‑gated ClC‑type chloride channel ClcB |
| RA | 1,662,649 | T→G | H58P (CAC→CCC) | mlc ← | DNA‑binding transcriptional repressor Mlc |
| RA | 1,671,899 | T→G | T88P (ACG→CCG) | pntA ← | Re/Si‑specific NAD(P)(+) transhydrogenase subunit alpha |
| RA | 1,673,542 | A→G | K287E (AAG→GAG) | ydgH → | DUF1471 family protein YdgH |
| RA | 1,717,498 | G→C | G374A (GGC→GCC) | ydhK → | FUSC family protein |
| RA | 1,760,505 | (T)5→4 | coding (2438/3057 nt) | ydiJ ← | FAD‑binding and (Fe‑S)‑binding domain‑containing protein |
| RA | 1,782,276 | T→G | V192G (GTG→GGG) | ppsR → | posphoenolpyruvate synthetase regulatory kinase/phosphorylase PpsR |
| RA | 1,795,564 | T→A | T422S (ACT→TCT) | thrS ← | threonine‑‑tRNA ligase |
| RA | 1,803,201 | A→G | V97A (GTC→GCC) | yniB ← | YniB family protein |
| RA | 1,807,028 | T→C | E121G (GAA→GGA) | BW25113_RS09050 ← | hypothetical protein |
| RA | 1,812,807 | (C)7→8 | intergenic (‑50/+55) | celF ← / ← chbR | 6‑phospho‑beta‑glucosidase/transcriptional regulator ChbR |
| RA | 1,818,674 | A→C | L174R (CTG→CGG) | ves ← | environmental stress‑induced protein Ves |
| RA | 1,838,813 | T→C | I106V (ATT→GTT) | ynjI ← | DUF1266 domain‑containing protein |
| RA | 1,854,126 | T→C | M121V (ATG→GTG) | ydjK ← | MFS transporter |
| RA | 1,868,213 | T→C | F128S (TTC→TCC) | yeaK → | mischarged aminoacyl‑tRNA deacylase |
| RA | 1,877,816 | T→C | pseudogene (408/1482 nt) | yeaV → | BCCT family transporter YeaV |
| RA | 1,878,490 | T→C | pseudogene (1082/1482 nt) | yeaV → | BCCT family transporter YeaV |
| RA | 1,903,061 | A→T | intergenic (‑38/‑121) | mgrB ← / → yobH | PhoP/PhoQ regulator MgrB/YobH family protein |
| RA | 1,909,798 | T→C | intergenic (‑7/+90) | proQ ← / ← msrC | RNA chaperone ProQ/L‑methionine (R)‑S‑oxide reductase |
| RA | 1,934,547 | T→C | intergenic (‑97/+23) | lpxM ← / ← mepM | lauroyl‑Kdo(2)‑lipid IV(A) myristoyltransferase/murein DD‑endopeptidase MepM |
| RA | 1,965,782 | T→G | E389D (GAA→GAC) | tar ← | methyl‑accepting chemotaxis protein II |
| RA | 1,980,420 | A→G | G5G (GGA→GGG) | ftnB → | non‑heme ferritin‑like protein |
| RA | 2,003,480 | T→C | F60S (TTC→TCC) | yedK → | SOS response‑associated peptidase |
| RA | 2,038,183 | (T)5→4 | intergenic (+78/‑236) | BW25113_RS10330 → / → yeeJ | tRNA‑Asn/inverse autotransporter adhesin YeeJ |
| RA | 2,057,664 | T→C | G95G (GGA→GGG) | cobT ← | nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
| RA | 2,064,259 | T→G | V93G (GTG→GGG) | BW25113_RS10440 → | GTPase family protein |
| RA | 2,102,646 | T→C | G140G (GGA→GGG) | wzx ← | O16 family O‑antigen flippase |
| RA | 2,122,248 | C→A | R41L (CGC→CTC) | wcaF ← | colanic acid biosynthesis acetyltransferase WcaF |
| RA | 2,122,528 | T→G | T202P (ACC→CCC) | wcaE ← | colanic acid biosynthesis glycosyltransferase WcaE |
| RA | 2,122,677 | A→G | F152S (TTC→TCC) | wcaE ← | colanic acid biosynthesis glycosyltransferase WcaE |
| RA | 2,131,004 | A→G | intergenic (‑280/‑379) | wza ← / → yegH | polysaccharide export protein Wza/TerC family protein |
| RA | 2,174,381 | T→G | C270G (TGC→GGC) | yegU → | ADP‑ribosylglycohydrolase family protein |
| RA | 2,176,805 | T→G | D109A (GAC→GCC) | yegX ← | glycoside hydrolase family 25 protein |
| RA | 2,196,055 | T→C | V766V (GTT→GTC) | BW25113_RS11045 → | DUF4132 domain‑containing protein |
| RA | 2,202,171 | G→C | W242C (TGG→TGC) | yehP → | VWA domain‑containing protein |
| RA | 2,220,044 | A→G | S236P (TCG→CCG) | yohF ← | SDR family oxidoreductase |
| RA | 2,229,956 | A→G | K405E (AAA→GAA) | preA → | NAD‑dependent dihydropyrimidine dehydrogenase subunit PreA |
| RA | 2,283,874 | Δ1 bp | intergenic (‑350/‑105) | BW25113_RS11435 ← / → narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP |
| RA | 2,284,519 | T→C | S181P (TCC→CCC) | narP → | nitrate/nitrite response regulator protein NarP |
| RA | 2,345,414 | T→G | H147P (CAC→CCC) | glpT ← | glycerol‑3‑phosphate transporter |
| RA | 2,396,099 | G→C | A413G (GCC→GGC) | nuoC ← | NADH‑quinone oxidoreductase subunit C/D |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 2,410,868 | A→T | G103G (GGA→GGT) | yfcC → | putative basic amino acid antiporter YfcC |
| RA | 2,414,135 | T→C | G12G (GGT→GGC) | yfcG → | GSH‑dependent disulfide bond oxidoreductase |
| RA | 2,425,778 | T→C | E215G (GAA→GGA) | folC ← | bifunctional tetrahydrofolate synthase/dihydrofolate synthase |
| RA | 2,435,707 | C→G | G155G (GGC→GGG) | mnmC → | bifunctional tRNA (5‑methylaminomethyl‑2‑thiouridine)(34)‑methyltransferase MnmD/FAD‑dependent 5‑carboxymethylaminomethyl‑2‑thiouridine(34) oxidoreductase MnmC |
| RA | 2,439,101 | T→C | K255E (AAG→GAG) | mepA ← | penicillin‑insensitive murein endopeptidase |
| RA | 2,505,777 | T→C | I137V (ATC→GTC) | mntH ← | Nramp family divalent metal transporter |
| RA | 2,526,050 | A→G | T95A (ACC→GCC) | cysK → | cysteine synthase A |
| RA | 2,536,106 | T→C | E261G (GAA→GGA) | cysP ← | thiosulfate/sulfate ABC transporter substrate‑binding protein CysP |
| RA | 2,554,121 | A→C | N169T (AAC→ACC) | BW25113_RS12740 → | hypothetical protein |
| RA | 2,623,127 | (T)5→4 | intergenic (+287/‑24) | yfgG → / → yfgH | YfgG family protein/glycine zipper 2TM domain‑containing protein |
| RA | 2,661,508 | T→G | T250P (ACC→CCC) | hcaR ← | DNA‑binding transcriptional regulator HcaR |
| RA | 2,678,723 | A→C | G48G (GGT→GGG) | glyA ← | serine hydroxymethyltransferase |
| RA | 2,713,233 | (A)5→4 | coding (652/699 nt) | tapT → | tRNA‑uridine aminocarboxypropyltransferase |
| RA | 2,725,700 | T→G | K611N (AAA→AAC) | clpB ← | ATP‑dependent chaperone ClpB |
| RA | 2,726,562 | (T)5→4 | coding (971/2574 nt) | clpB ← | ATP‑dependent chaperone ClpB |
| RA | 2,751,237 | A→G | V241V (GTT→GTC) | BW25113_RS13685 ← | hypothetical protein |
| RA | 2,753,169 | T→C | S276P (TCA→CCA) | yfjI → | YfjI family protein |
| RA | 2,778,934 | (T)6→5 | intergenic (‑564/+187) | BW25113_RS25705 ← / ← BW25113_RS13825 | DUF5507 domain‑containing protein/tRNA‑Ile |
| RA | 2,801,112 | A→C | T208P (ACC→CCC) | proX → | glycine betaine/L‑proline ABC transporter substrate‑binding protein ProX |
| RA | 2,818,451 | T→C | E162G (GAA→GGA) | mltB ← | lytic murein transglycosylase B |
| RA | 2,819,095 | T→C | intergenic (‑160/‑96) | mltB ← / → srlA | lytic murein transglycosylase B/PTS glucitol/sorbitol transporter subunit IIC |
| RA | 2,849,315 | A→C | Y540S (TAC→TCC) | flhA → | formate hydrogenlyase transcriptional activator FlhA |
| RA | 2,849,816 | T→C | E117G (GAA→GGA) | ygbA ← | nitrous oxide‑stimulated promoter family protein |
| RA | 2,859,998 | T→C | I305V (ATT→GTT) | rpoS ← | RNA polymerase sigma factor RpoS |
| RA | 2,882,413 | A→C | V349G (GTT→GGT) | cysI ← | assimilatory sulfite reductase (NADPH) hemoprotein subunit |
| RA | 2,888,711 | A→G | V143A (GTC→GCC) | ygcQ ← | electron transfer flavoprotein subunit alpha/FixB family protein |
| RA | 2,982,555 | T→C | F232S (TTC→TCC) | yqeI → | transcriptional regulator |
| RA | 3,011,010 | A→G | E531G (GAA→GGA) | ygfK → | putative selenate reductase subunit YgfK |
| RA | 3,085,073 | G→C | G194A (GGC→GCC) | rsmE → | 16S rRNA (uracil(1498)‑N(3))‑methyltransferase |
| RA | 3,098,336 | Δ1 bp | coding (545/1080 nt) | mltC → | membrane‑bound lytic murein transglycosylase MltC |
| RA | 3,103,871 | (A)7→6 | intergenic (+71/+78) | BW25113_RS15410 → / ← yghD | tRNA‑Phe/GspM family type II secretion system protein YghD |
| RA | 3,248,409 | A→C | K3T (AAA→ACA) | BW25113_RS16135 → | hypothetical protein |
| RA | 3,273,721 | A→G | E49G (GAA→GGA) | agaV → | PTS N‑acetylgalactosamine transporter subunit IIB |
| RA | 3,275,191 | T→G | intergenic (+207/‑144) | BW25113_RS16255 → / → agaS | amidohydrolase family protein/AgaS family sugar isomerase |
| RA | 3,356,378 | (A)8→7 | coding (213/2382 nt) | yhcD → | fimbrial biogenesis outer membrane usher protein |
| RA | 3,458,386 | A→G | E369G (GAA→GGA) | gspL → | type II secretion system protein GspL |
| RA | 3,475,701 | T→C | S352P (TCG→CCG) | yheS → | ABC transporter ATP‑binding protein |
| RA | 3,535,339 | T→C | F525S (TTC→TCC) | feoB → | Fe(2+) transporter permease subunit FeoB |
| RA | 3,576,634 | A→G | R79R (CGA→CGG) | BW25113_RS17825 → | YrhA family protein |
| RA | 3,579,168 | T→C | E339G (GAA→GGA) | ggt ← | gamma‑glutamyltransferase |
| RA | 3,597,860 | C→T | T36T (ACC→ACT) | rsmD → | 16S rRNA (guanine(966)‑N(2))‑methyltransferase |
| RA | 3,679,062 | A→C | *1158E (TAA→GAA) | bcsC ← | cellulose synthase complex outer membrane protein BcsC |
| RA | 3,681,554 | (T)5→4 | coding (980/3474 nt) | bcsC ← | cellulose synthase complex outer membrane protein BcsC |
| RA | 3,717,969 | T→C | E237G (GAA→GGA) | glyQ ← | glycine‑‑tRNA ligase subunit alpha |
| RA | 3,786,467 | T→C | I193V (ATT→GTT) | yibB ← | protein YibB |
| RA | 3,786,991 | T→C | D18G (GAT→GGT) | yibB ← | protein YibB |
| RA | 3,791,182 | A→C | Y292S (TAC→TCC) | waaL → | O‑antigen ligase |
| RA | 3,836,838 | (C)5→4 | coding (312/1335 nt) | adeQ ← | adenine permease AdeQ |
| RA | 3,896,621 | A→G | D147D (GAT→GAC) | bglB ← | 6‑phospho‑beta‑glucosidase BglB |
| RA | 3,898,828 | (T)5→4 | coding (130/1878 nt) | bglF ← | PTS beta‑glucoside transporter subunit IIABC |
| RA | 3,922,863 | A→G | V34A (GTC→GCC) | viaA ← | ATPase RavA stimulator ViaA |
| RA | 4,004,326 | T→G | V256G (GTG→GGG) | yigL → | sugar/pyridoxal phosphate phosphatase YigL |
| RA | 4,073,163 | A→T | D26V (GAT→GTT) | BW25113_RS20185 → | hypothetical protein |
| RA | 4,084,653 | A→G | G358G (GGT→GGC) | frvB ← | PTS fructose‑like transporter subunit IIBC |
| RA | 4,117,071 | T→C | F44S (TTC→TCC) | rpmE → | 50S ribosomal protein L31 |
| RA | 4,153,816 | T→C | S84P (TCA→CCA) | btuB → | TonB‑dependent vitamin B12 receptor BtuB |
| RA | 4,165,187 | (A)5→4 | intergenic (‑233/‑129) | coaA ← / → BW25113_RS20630 | type I pantothenate kinase/tRNA‑Thr |
| RA | 4,180,586 | (A)7→6 | intergenic (+333/+77) | yjaZ → / ← thiH | heat‑shock protein C/2‑iminoacetate synthase ThiH |
| RA | 4,211,170 | (T)8→7 | coding (1246/2187 nt) | espL4 ← | type III secretion system effector EspL4 |
| RA | 4,215,724 | T→G | W657G (TGG→GGG) | metH → | methionine synthase |
| RA | 4,306,692 | A→T | I115N (ATC→AAC) | phnM ← | alpha‑D‑ribose 1‑methylphosphonate 5‑triphosphate diphosphatase |
| RA | 4,336,254 | T→G | D297A (GAC→GCC) | fumB ← | class I fumarate hydratase |
| RA | 4,367,563 | T→C | intergenic (‑24/+65) | blc ← / ← ampC | lipocalin Blc/BlaEC family class C beta‑lactamase |
| RA | 4,421,635 | C→G | A56P (GCA→CCA) | ytfE ← | iron‑sulfur cluster repair protein YtfE |
| RA | 4,484,479 | A→G | S14G (AGT→GGT) | idnK → | gluconokinase |
| RA | 4,494,539 | T→C | F222S (TTC→TCC) | nanX → | MFS transporter |
| RA | 4,500,063 | T→G | intergenic (+113/+444) | BW25113_RS25830 → / ← fecE | hypothetical protein/Fe(3+) dicitrate ABC transporter ATP‑binding protein FecE |
| RA | 4,527,151 | T→C | Q87Q (CAA→CAG) | nanS ← | 9‑O‑acetyl‑N‑acetylneuraminic acid deacetylase |
| RA | 4,543,103 | A→G | E129G (GAA→GGA) | uxuB → | fructuronate reductase |
| RA | 4,593,447 | T→C | S52P (TCC→CCC) | yjjQ → | response regulator transcription factor |
| RA | 4,629,389 | (T)8→7 | intergenic (+42/+18) | creD → / ← arcA | cell envelope integrity protein CreD/two‑component system response regulator ArcA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 356977 | 357574 | 598 | 2 [1] | [0] 2 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 428493 | 428555 | 63 | 2 [1] | [1] 2 | nrdR | transcriptional regulator NrdR |
| * | * | ÷ | NZ_CP009273 | 692135 | 692158 | 24 | 2 [1] | [1] 2 | BW25113_RS03450 | tRNA‑Met |
| * | * | ÷ | NZ_CP009273 | 712149 | 712164 | 16 | 2 [1] | [0] 2 | BW25113_RS03565/BW25113_RS03570 | DUF2625 domain‑containing protein/winged helix‑turn‑helix domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 712826 | 712844 | 19 | 2 [0] | [1] 2 | potE | putrescine‑ornithine antiporter |
| * | * | ÷ | NZ_CP009273 | 725084 | 725105 | 22 | 2 [1] | [1] 2 | rhsC | rhs element protein RhsC |
| * | * | ÷ | NZ_CP009273 | 763355 | 763373 | 19 | 2 [1] | [1] 2 | mngA | PTS 2‑O‑a‑mannosyl‑D‑glycerate transporter subunit IIABC |
| * | * | ÷ | NZ_CP009273 | 763916 | 763995 | 80 | 2 [1] | [0] 3 | mngB | mannosylglycerate hydrolase |
| * | * | ÷ | NZ_CP009273 | 766733 | 766753 | 21 | 2 [1] | [1] 3 | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
| * | * | ÷ | NZ_CP009273 | 772574 | 772584 | 11 | 2 [0] | [1] 2 | tolA | cell envelope integrity protein TolA |
| * | * | ÷ | NZ_CP009273 | 784781 | 784798 | 18 | 2 [1] | [1] 3 | galK | galactokinase |
| * | * | ÷ | NZ_CP009273 | 805652 | 805703 | 52 | 2 [1] | [1] 2 | bioB | biotin synthase BioB |
| * | * | ÷ | NZ_CP009273 | 806006 | 806087 | 82 | 2 [1] | [1] 3 | bioF | 8‑amino‑7‑oxononanoate synthase |
| * | * | ÷ | NZ_CP009273 | 806374 | 806421 | 48 | 2 [1] | [1] 2 | bioF | 8‑amino‑7‑oxononanoate synthase |
| * | * | ÷ | NZ_CP009273 | 807681 | 807740 | 60 | 2 [1] | [0] 3 | [bioC]–[bioD] | [bioC],[bioD] |
| * | * | ÷ | NZ_CP009273 | 861882 | 861923 | 42 | 4 [1] | [1] 2 | moeA/iaaA | molybdopterin molybdotransferase MoeA/beta‑aspartyl‑peptidase |
| * | * | ÷ | NZ_CP009273 | 880664 | 880701 | 38 | 2 [0] | [1] 2 | [BW25113_RS04375] | [BW25113_RS04375] |
| * | * | ÷ | NZ_CP009273 | 881365 | 881372 | 8 | 3 [0] | [1] 2 | ybjI | 5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase |
| * | * | ÷ | NZ_CP009273 | 902995 | 903057 | 63 | 2 [1] | [1] 2 | ybjT | SDR family oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 916472 | 916541 | 70 | 2 [1] | [1] 5 | macB | macrolide ABC transporter ATP‑binding protein/permease MacB |
| * | * | ÷ | NZ_CP009273 | 934677 | 934702 | 26 | 2 [1] | [1] 2 | rarA | replication‑associated recombination protein RarA |
| * | * | ÷ | NZ_CP009273 | 968746 | 968787 | 42 | 2 [1] | [1] 3 | elyC | envelope biogenesis factor ElyC |
| * | * | ÷ | NZ_CP009273 | 970157 | 970177 | 21 | 2 [0] | [0] 3 | mukF | chromosome partition protein MukF |
| * | * | ÷ | NZ_CP009273 | 970391 | 970445 | 55 | 2 [1] | [1] 3 | mukF | chromosome partition protein MukF |
| * | * | ÷ | NZ_CP009273 | 988008 | 988059 | 52 | 2 [1] | [1] 2 | pepN | aminopeptidase N |
| * | * | ÷ | NZ_CP009273 | 1017025 | 1017063 | 39 | 2 [0] | [1] 2 | sxy | CRP‑S regulon transcriptional coactivator Sxy |
| * | * | ÷ | NZ_CP009273 | 1024403 | 1024477 | 75 | 3 [0] | [1] 3 | rlmI | 23S rRNA (cytosine(1962)‑C(5))‑methyltransferase RlmI |
| * | * | ÷ | NZ_CP009273 | 1041705 | 1041735 | 31 | 3 [1] | [1] 2 | gfcD | YjbH domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1044436 | 1044457 | 22 | 2 [0] | [1] 2 | gfcB | lipoprotein GfcB |
| * | * | ÷ | NZ_CP009273 | 1094788 | 1094827 | 40 | 2 [1] | [1] 2 | ycdX | zinc‑binding phosphatase |
| * | * | ÷ | NZ_CP009273 | 1098860 | 1098882 | 23 | 2 [0] | [1] 2 | csgD/csgB | biofilm master transcriptional regulator CsgD/curli minor subunit CsgB |
| * | * | ÷ | NZ_CP009273 | 1101424 | 1101450 | 27 | 2 [1] | [1] 2 | ymdB | O‑acetyl‑ADP‑ribose deacetylase |
| * | * | ÷ | NZ_CP009273 | 1129468 | 1129497 | 30 | 2 [1] | [1] 2 | flgF | flagellar basal‑body rod protein FlgF |
| * | * | ÷ | NZ_CP009273 | 1135272 | 1135321 | 50 | 3 [1] | [0] 3 | flgK | flagellar hook‑associated protein FlgK |
| * | * | ÷ | NZ_CP009273 | 1158182 | 1158238 | 57 | 2 [1] | [1] 2 | lpoB | penicillin‑binding protein activator LpoB |
| * | * | ÷ | NZ_CP009273 | 1164381 | 1164434 | 54 | 2 [0] | [1] 2 | comR/bhsA | TetR family copper‑responsive transcriptional repressor ComR/multiple stress resistance protein BhsA |
| * | * | ÷ | NZ_CP009273 | 1168267 | 1168330 | 64 | 2 [1] | [1] 2 | mfd | transcription‑repair coupling factor |
| * | * | ÷ | NZ_CP009273 | 1187844 | 1187911 | 68 | 3 [1] | [1] 2 | hflD | high frequency lysogenization protein HflD |
| * | * | ÷ | NZ_CP009273 | 1193090 | 1193204 | 115 | 2 [0] | [1] 3 | BW25113_RS05920 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1200223 | 1200249 | 27 | 2 [1] | [1] 3 | BW25113_RS05965 | terminase large subunit |
| * | * | ÷ | NZ_CP009273 | 1216668 | 1216680 | 13 | 2 [1] | [1] 3 | BW25113_RS25990 | autotransporter outer membrane beta‑barrel domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1219342 | 1219352 | 11 | 2 [1] | [0] 2 | BW25113_RS06105 | autotransporter outer membrane beta‑barrel domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1219996 | 1220011 | 16 | 2 [0] | [1] 2 | [minE]–[minD] | [minE],[minD] |
| * | * | ÷ | NZ_CP009273 | 1222986 | 1223012 | 27 | 2 [1] | [1] 2 | pliG/BW25113_RS06140 | PPC domain‑containing protein/YcgL domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1235127 | 1235140 | 14 | 2 [0] | [0] 2 | dadX | catabolic alanine racemase DadX |
| * | * | ÷ | NZ_CP009273 | 1239621 | 1239666 | 46 | 2 [1] | [1] 3 | ycgR | flagellar brake protein |
| * | * | ÷ | NZ_CP009273 | 1241233 | 1241279 | 47 | 2 [1] | [0] 3 | treA | alpha,alpha‑trehalase |
| * | * | ÷ | NZ_CP009273 | 1244859 | 1244899 | 41 | 2 [0] | [1] 2 | dhaL | dihydroxyacetone kinase subunit DhaL |
| * | * | ÷ | NZ_CP009273 | 1247245 | 1247317 | 73 | 3 [1] | [1] 2 | dhaR | dihydroxyacetone kinase operon transcriptional regulator DhaR |
| * | * | ÷ | NZ_CP009273 | 1250407 | 1250425 | 19 | 2 [0] | [1] 2 | ycgV | autotransporter outer membrane beta‑barrel domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1253687 | 1253731 | 45 | 2 [1] | [1] 3 | pth | aminoacyl‑tRNA hydrolase |
| * | * | ÷ | NZ_CP009273 | 1276484 | 1276510 | 27 | 3 [1] | [1] 2 | narG | nitrate reductase subunit alpha |
| * | * | ÷ | NZ_CP009273 | 1282345 | 1282372 | 28 | 2 [1] | [1] 2 | BW25113_RS23090 | RtT sRNA |
| * | * | ÷ | NZ_CP009273 | 1288547 | 1288556 | 10 | 2 [1] | [1] 2 | hns/tdk | DNA‑binding transcriptional regulator H‑NS/thymidine kinase |
| * | * | ÷ | NZ_CP009273 | 1295081 | 1295093 | 13 | 2 [1] | [0] 2 | BW25113_RS25865 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1298493 | 1298517 | 25 | 2 [0] | [1] 2 | oppC | oligopeptide ABC transporter permease OppC |
| * | * | ÷ | NZ_CP009273 | 1299155 | 1299178 | 24 | 2 [1] | [1] 2 | oppD | murein tripeptide/oligopeptide ABC transporter ATP‑binding protein OppD |
| * | * | ÷ | NZ_CP009273 | 1307209 | 1307230 | 22 | 2 [1] | [1] 3 | yciC | YciC family protein |
| * | * | ÷ | NZ_CP009273 | 1310141 | 1310175 | 35 | 3 [1] | [1] 2 | yciG | general stress protein |
| * | * | ÷ | NZ_CP009273 | 1312979 | 1313019 | 41 | 3 [1] | [0] 2 | trpCF | bifunctional indole‑3‑glycerol‑phosphate synthase TrpC/phosphoribosylanthranilate isomerase TrpF |
| * | * | ÷ | NZ_CP009273 | 1316009 | 1316020 | 12 | 3 [0] | [1] 2 | trpE | anthranilate synthase component I |
| * | * | ÷ | NZ_CP009273 | 1321167 | 1321251 | 85 | 2 [1] | [0] 2 | rluB | 23S rRNA pseudouridine(2605) synthase RluB |
| * | * | ÷ | NZ_CP009273 | 1322835 | 1322839 | 5 | 2 [0] | [0] 2 | yciK | YciK family oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 1326016 | 1326067 | 52 | 2 [1] | [1] 2 | topA | type I DNA topoisomerase |
| * | * | ÷ | NZ_CP009273 | 1327235 | 1327283 | 49 | 2 [1] | [1] 2 | topA | type I DNA topoisomerase |
| * | * | ÷ | NZ_CP009273 | 1341852 | 1341915 | 64 | 2 [1] | [0] 2 | rnb | exoribonuclease II |
| * | * | ÷ | NZ_CP009273 | 1346814 | 1346845 | 32 | 2 [1] | [0] 3 | sapF | peptide ABC transporter ATP‑binding protein SapF |
| * | * | ÷ | NZ_CP009273 | 1369403 | 1369430 | 28 | 2 [1] | [1] 2 | ycjQ | zinc‑binding alcohol dehydrogenase |
| * | * | ÷ | NZ_CP009273 | 1387897 | 1387924 | 28 | 2 [1] | [1] 3 | mppA | murein tripeptide ABC transporter substrate‑binding protein MppA |
| * | * | ÷ | NZ_CP009273 | 1416905 | 1416915 | 11 | 2 [1] | [1] 2 | ydaV | ATP‑binding protein |
| * | * | ÷ | NZ_CP009273 | 1417343 | 1417375 | 33 | 2 [0] | [1] 2 | BW25113_RS07140 | DUF1627 domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 1417509 | 1417573 | 65 | 3 [1] | [1] 3 | BW25113_RS07140/rzoD | DUF1627 domain‑containing protein/prophage lysis lipoprotein RzoD |
| * | * | ÷ | NZ_CP009273 | 1448162 | 1448231 | 70 | 2 [1] | [1] 3 | [paaA] | [paaA] |
| * | * | ÷ | NZ_CP009273 | 1452161 | 1452189 | 29 | 2 [1] | [1] 2 | paaF | 2,3‑dehydroadipyl‑CoA hydratase |
| * | * | ÷ | NZ_CP009273 | 1459471 | 1459516 | 46 | 2 [1] | [1] 2 | [BW25113_RS25580] | [BW25113_RS25580] |
| * | * | ÷ | NZ_CP009273 | 1483571 | 1483574 | 4 | 3 [1] | [0] 3 | aldA | aldehyde dehydrogenase |
| * | * | ÷ | NZ_CP009273 | 1518946 | 1518979 | 34 | 2 [1] | [1] 2 | ansP | L‑asparagine permease |
| * | * | ÷ | NZ_CP009273 | 1561968 | 1562000 | 33 | 2 [1] | [0] 2 | digH | glycoside hydrolase family 10 protein |
| * | * | ÷ | NZ_CP009273 | 1566576 | 1566615 | 40 | 2 [1] | [1] 2 | gadB/pqqL | glutamate decarboxylase/insulinase family protein |
| * | * | ÷ | NZ_CP009273 | 1596033 | 1596060 | 28 | 2 [0] | [1] 3 | lsrA | autoinducer 2 ABC transporter ATP‑binding protein LsrA |
| * | * | ÷ | NZ_CP009273 | 1641412 | 1641488 | 77 | 2 [1] | [1] 2 | [BW25113_RS23105] | [BW25113_RS23105] |
| * | * | ÷ | NZ_CP009273 | 1684176 | 1684186 | 11 | 3 [1] | [1] 4 | ydgA | YdgA family protein |
| * | * | ÷ | NZ_CP009273 | 1706505 | 1706531 | 27 | 2 [0] | [1] 3 | nth/dtpA | endonuclease III/dipeptide/tripeptide permease DtpA |
| * | * | ÷ | NZ_CP009273 | 1731583 | 1731615 | 33 | 2 [1] | [0] 2 | ydhP/ynhF | MFS transporter/cytochrome bd‑I accessory subunit CydH |
| * | * | ÷ | NZ_CP009273 | 1791547 | 1791591 | 45 | 2 [1] | [1] 2 | pheT | phenylalanine‑‑tRNA ligase subunit beta |
| * | * | ÷ | NZ_CP009273 | 1972752 | 1972775 | 24 | 18 [0] | [1] 2 | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| * | * | ÷ | NZ_CP009273 | 1974580 | 1974590 | 11 | 2 [0] | [1] 2 | otsA | alpha,alpha‑trehalose‑phosphate synthase |
| * | * | ÷ | NZ_CP009273 | 2006477 | 2006486 | 10 | 3 [1] | [1] 2 | fliE | flagellar hook‑basal body complex protein FliE |
| * | * | ÷ | NZ_CP009273 | 2062030 | 2062127 | 98 | 2 [1] | [1] 2 | [BW25113_RS24005] | [BW25113_RS24005] |
| * | * | ÷ | NZ_CP009273 | 2072004 | 2072015 | 12 | 2 [1] | [0] 3 | BW25113_RS25930/BW25113_RS24015 | hypothetical protein/transposase domain‑containing protein |
| * | * | ÷ | NZ_CP009273 | 2113998 | 2114025 | 28 | 2 [1] | [1] 4 | wcaJ | UDP‑glucose‑‑undecaprenyl‑phosphate glucose‑1‑phosphate transferase |
| * | * | ÷ | NZ_CP009273 | 2135429 | 2135447 | 19 | 2 [1] | [1] 2 | dcd | dCTP deaminase |
| * | * | ÷ | NZ_CP009273 | 2142695 | 2142702 | 8 | 3 [0] | [1] 2 | yegI | protein kinase YegI |
| * | * | ÷ | NZ_CP009273 | 2149196 | 2149241 | 46 | 3 [1] | [1] 2 | mdtB | multidrug efflux RND transporter permease subunit MdtB |
| * | * | ÷ | NZ_CP009273 | 2174310 | 2174339 | 30 | 4 [0] | [1] 3 | yegU | ADP‑ribosylglycohydrolase family protein |
| * | * | ÷ | NZ_CP009273 | 2203796 | 2203832 | 37 | 2 [1] | [1] 2 | yehQ | C69 family dipeptidase |
| * | * | ÷ | NZ_CP009273 | 2218296 | 2218312 | 17 | 2 [1] | [0] 2 | pbpG | D‑alanyl‑D‑alanine endopeptidase |
| * | * | ÷ | NZ_CP009273 | 2297653 | 2297669 | 17 | 3 [0] | [0] 2 | eco | serine protease inhibitor ecotin |
| * | * | ÷ | NZ_CP009273 | 2327167 | 2327177 | 11 | 2 [1] | [0] 2 | BW25113_RS11635 | alpha‑2‑macroglobulin family protein |
| * | * | ÷ | NZ_CP009273 | 2368134 | 2368204 | 71 | 2 [0] | [1] 2 | menE | o‑succinylbenzoate‑‑CoA ligase |
| * | * | ÷ | NZ_CP009273 | 2370937 | 2370947 | 11 | 2 [0] | [1] 3 | menH | 2‑succinyl‑6‑hydroxy‑2, 4‑cyclohexadiene‑1‑carboxylate synthase |
| * | * | ÷ | NZ_CP009273 | 2371264 | 2371309 | 46 | 2 [1] | [1] 2 | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| * | * | ÷ | NZ_CP009273 | 2440483 | 2440541 | 59 | 2 [1] | [1] 2 | aroC | chorismate synthase |
| * | * | ÷ | NZ_CP009273 | 2505244 | 2505318 | 75 | 2 [0] | [1] 2 | mntH | Nramp family divalent metal transporter |
| * | * | ÷ | NZ_CP009273 | 2730449 | 2730471 | 23 | 2 [1] | [0] 2 | bamD/raiA | outer membrane protein assembly factor BamD/ribosome‑associated translation inhibitor RaiA |
| * | * | ÷ | NZ_CP009273 | 2961087 | 2961106 | 20 | 3 [1] | [0] 3 | ptsP | phosphoenolpyruvate‑‑protein phosphotransferase |
| * | * | ÷ | NZ_CP009273 | 3792559 | 3792620 | 62 | 2 [1] | [1] 2 | waaU | glycosyltransferase family 9 protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 30 (2.130) | 16/168 | 0.1 | 71.4% | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | 12 (0.850) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 9 (0.640) | 6 (0.530) | 6/136 | 0.5 | 53.8% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 3 (0.260) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1972751 | 0 (0.000) | 18 (1.280) | 17/168 | 0.1 | 100% | intergenic (‑297/‑483) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| ? | NZ_CP009273 | = 2283592 | NA (NA) | intergenic (‑68/‑387) | BW25113_RS11435/narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP | |||||
| * | ? | NZ_CP009273 | 4532499 = | 9 (0.640) | 4 (0.320) | 4/150 | 0.8 | 31.9% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 9 (0.720) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||