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 | 34,839 | T→C | Q178R (CAA→CGA) | caiE ← | putative transferase CaiE |
| RA | 67,549 | C→T | M263I (ATG→ATA) | araA ← | L‑arabinose isomerase |
| RA | 68,506 | C→T | A515T (GCC→ACC) | araB ← | ribulokinase |
| RA | 72,878 | C→T | R17H (CGT→CAT) | thiQ ← | thiamine ABC transporter ATP binding subunit |
| RA | 81,515 | C→T | Q148Q (CAG→CAA) | leuB ← | 3‑isopropylmalate dehydrogenase |
| RA | 98,181 | A→G | V365V (GTA→GTG) | murD → | UDP‑N‑acetylmuramoyl‑L‑alanine‑‑D‑glutamate ligase |
| RA | 122,170 | A→G | T27A (ACT→GCT) | pdhR → | DNA‑binding transcriptional dual regulator PdhR |
| RA | 144,822 | A→G | K82K (AAA→AAG) | yadI → | putative PTS enzyme IIA component YadI |
| RA | 149,567 | T→C | Y12C (TAC→TGC) | panB ← | 3‑methyl‑2‑oxobutanoate hydroxymethyltransferase |
| RA | 167,602 | A→G | D40G (GAC→GGC) | fhuA → | ferrichrome outer membrane transporter/phage receptor |
| RA | 200,200 | C→T | P758L (CCG→CTG) | bamA → | outer membrane protein assembly factor BamA |
| RA | 211,877 | A→G | M1M (ATG→GTG) † | yaeR → | VOC domain‑containing protein YaeR |
| RA | 215,141 | (A)8→7 | coding (309/423 nt) | arfB → | peptidyl‑tRNA hydrolase, ribosome rescue factor |
| RA | 242,717 | A→T | I196N (ATC→AAC) | fadE ← | acyl‑CoA dehydrogenase |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 263,909 | C→T | R33R (CGG→CGA) | yafW ← | antitoxin of the YkfI‑YafW toxin‑antitoxin pair |
| RA | 267,042 | A→G | intergenic (‑489/+142) | yafY ← / ← yafZ | CP4‑6 prophage; inner membrane lipoprotein YafY/CP4‑6 prophage; conserved protein YafZ |
| RA | 298,172 | A→G | R185R (CGT→CGC) | paoD ← | molybdenum cofactor insertion chaperone for PaoABC |
| RA | 380,021 | (G)10→8 | intergenic (‑140/+47) | frmR ← / ← yaiO | DNA‑binding transcriptional repressor FrmR/outer membrane protein YaiO |
| RA | 397,915 | T→C | V15A (GTT→GCT) | yaiW → | surface‑exposed outer membrane lipoprotein |
| RA | 404,305 | A→G | E201E (GAA→GAG) | dgcC → | diguanylate cyclase DgcC |
| RA | 406,193 | T→C | W144R (TGG→CGG) | yaiI → | DUF188 domain‑containing protein YaiI |
| RA | 442,234 | A→G | N229S (AAC→AGC) | thiI → | tRNA uridine 4‑sulfurtransferase |
| RA | 445,815 | G→A | C284C (TGC→TGT) | yajR ← | putative major facilitator superfamily transport protein YajR |
| RA | 471,607 | A→G | G324G (GGA→GGG) | mdlB → | ABC transporter family protein MdlB |
| RA | 527,577 | T→C | intergenic (+36/‑4) | rhsD → / → ybbC | protein RhsD/PF15631 family protein YbbC |
| RA | 550,199 | T→C | G191G (GGT→GGC) | ylbF → | DUF2877 domain‑containing protein YlbF |
| MC JC | 551,375 | Δ70 bp | intergenic (+43/+83) | ybcF → / ← purK | putative carbamate kinase/5‑(carboxyamino)imidazole ribonucleotide synthase |
| RA | 556,489 | A→G | V22A (GTC→GCC) | ybcI ← | conserved inner membrane protein YbcI |
| RA | 566,871 | (A)6→5 | coding (30/300 nt) | insE‑3 → | DLP12 prophage; IS3 element protein InsE |
| RA | 579,108 | A→G | intergenic (‑215/+76) | borD ← / ← ybcV | DLP12 prophage; prophage lipoprotein BorD/DLP12 prophage; protein YbcV |
| RA | 637,019 | T→C | Q200Q (CAA→CAG) | ybdO ← | putative LysR family DNA‑binding transcriptional regulator YbdO |
| RA | 640,119 | A→G | T123A (ACC→GCC) | ahpF → | alkyl hydroperoxide reductase, AhpF component |
| RA | 645,711 | C→T | L290L (CTG→CTA) | citT ← | citrate:succinate antiporter |
| RA | 646,353 | A→G | D76D (GAT→GAC) | citT ← | citrate:succinate antiporter |
| RA | 647,203 | A→G | F103L (TTC→CTC) | citG ← | triphosphoribosyl‑dephospho‑CoA synthase |
| RA | 667,244 | A→G | V325A (GTT→GCT) | mrdA ← | peptidoglycan DD‑transpeptidase MrdA |
| RA | 686,826 | +C | intergenic (‑157/+13) | gltJ ← / ← gltI | glutamate/aspartate ABC transporter membrane subunit GltJ/glutamate/aspartate ABC transporter periplasmic binding protein |
| RA | 687,043 | A→G | G235G (GGT→GGC) | gltI ← | glutamate/aspartate ABC transporter periplasmic binding protein |
| RA | 693,311 | C→G | G23A (GGC→GCC) | ybeZ ← | PhoH‑like protein |
| RA | 710,089 | G→A | W100* (TGG→TGA) | chiQ → | lipoprotein ChiQ |
| RA | 768,123 | A→G | Y49C (TAT→TGT) | mngB → | alpha‑mannosidase |
| RA | 783,280 | C→T | L39F (CTT→TTT) | pnuC → | nicotinamide riboside transporter |
| RA | 864,274 | G→A | W211* (TGG→TGA) | fsaA → | fructose‑6‑phosphate aldolase 1 |
| JC | 868,422 | (C)8→11 | coding (903/1872 nt) | gsiA → | glutathione ABC transporter ATP binding subunit GsiA |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 921,427 | A→G | N361D (AAC→GAC) | macB → | ABC‑type tripartite efflux pump ATP binding/membrane subunit |
| RA | 932,340 | (A)8→7 | intergenic (‑290/‑255) | trxB ← / → lrp | thioredoxin reductase/DNA‑binding transcriptional dual regulator Lrp |
| RA | 938,898 | A→G | D302G (GAC→GGC) | rarA → | recombination factor |
| RA | 942,977 | T→A | D673E (GAT→GAA) | dmsA → | dimethyl sulfoxide reductase subunit A |
| RA | 948,681 | A→G | S296S (AGT→AGC) | ycaN ← | putative LysR‑type transcriptional regulator YcaN |
| RA | 961,535 | C→T | A112V (GCA→GTA) | cmk → | cytidylate kinase |
| RA | 1,002,224 | (G)7→8 | coding (418/1071 nt) | elfG → | putative fimbrial‑like adhesin protein |
| RA | 1,010,898 | C→T | A312V (GCC→GTC) | uup → | ATP‑binding protein with possible role in replication |
| RA | 1,062,228 | A→G | T144A (ACC→GCC) | torD → | trimethylamine‑N‑oxide reductase‑specific chaperone |
| RA | 1,062,547 | A→G | intergenic (+149/+3) | torD → / ← cbpM | trimethylamine‑N‑oxide reductase‑specific chaperone/chaperone modulator CbpM |
| RA | 1,108,782 | A→G | F54L (TTC→CTC) | opgC ← | protein required for succinyl modification of osmoregulated periplasmic glucans |
| RA | 1,135,901 | Δ1 bp | coding (338/699 nt) | flgH → | flagellar L‑ring protein |
| RA | 1,143,140 | T→C | T410A (ACT→GCT) | rne ← | ribonuclease E |
| RA | 1,220,971 | G→A | pseudogene (1371/2648 nt) | ycgH → | putative transporter component, N‑terminal fragment |
| RA | 1,240,582 | C→T | G497D (GGT→GAT) | cvrA ← | putative K(+):H(+) antiporter |
| RA | 1,257,583 | A→G | V77A (GTA→GCA) | ychF ← | redox‑responsive ATPase YchF |
| RA | 1,260,656 | A→G | L50L (TTG→CTG) | dauA ← | aerobic C4‑dicarboxylate transporter DauA |
| RA | 1,264,036 | A→G | D108G (GAT→GGT) | hemA → | glutamyl‑tRNA reductase |
| RA | 1,270,445 | T→C | noncoding (53/68 nt) | rdlC → | small regulatory antisense RNA RdlC |
| MC JC | 1,299,499 | Δ1,199 bp | insH21 | insH21 | |
| RA | 1,308,423 | A→G | W75R (TGG→CGG) | clsA ← | cardiolipin synthase A |
| RA | 1,344,172 | T→C | S59G (AGT→GGT) | yciT ← | putative DNA‑binding transcriptional regulator YciT |
| RA | 1,359,363 | T→C | intergenic (‑22/+127) | ymjE ← / ← puuA | protein YmjE/glutamate‑putrescine ligase |
| RA | 1,370,044 | (T)9→8 | intergenic (+41/‑172) | pspE → / → ycjM | thiosulfate sulfurtransferase PspE/glucosylglycerate phosphorylase |
| RA | 1,399,667 | T→C | intergenic (‑141/+54) | fnr ← / ← ogt | DNA‑binding transcriptional dual regulator FNR/methylated‑DNA‑‑[protein]‑cysteine S‑methyltransferase |
| RA | 1,405,021 | C→T | A94V (GCA→GTA) | abgR → | putative LysR‑type DNA‑binding transcriptional regulator AbgR |
| RA | 1,405,078 | T→C | V113A (GTC→GCC) | abgR → | putative LysR‑type DNA‑binding transcriptional regulator AbgR |
| RA | 1,442,261 | A→G | F195L (TTC→CTC) | ldhA ← | D‑lactate dehydrogenase |
| RA | 1,475,227 | T→C | C28C (TGT→TGC) | ydbD → | DUF2773 domain‑containing protein YdbD |
| RA | 1,505,308 | Δ1 bp | coding (773/1176 nt) | ydcO ← | putative transport protein YdcO |
| RA | 1,510,788 | (A)8→7 | coding (786/1407 nt) | ydcR → | fused putative DNA‑binding transcriptional regulator/putative aminotransferase YdcR |
| RA | 1,511,968 | A→G | K105K (AAA→AAG) | ydcS → | putative ABC transporter periplasmic binding protein/polyhydroxybutyrate synthase |
| RA | 1,521,361 | T→C | T569A (ACC→GCC) | yncD ← | putative TonB‑dependent outer membrane receptor |
| RA | 1,538,868 | T→C | V1241V (GTA→GTG) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,541,351 | C→T | E414K (GAA→AAA) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,577,857 | C→T | A496T (GCC→ACC) | yddA ← | ABC transporter family protein YddA |
| RA | 1,582,309 | T→C | Q72Q (CAA→CAG) | ydeN ← | putative sulfatase |
| RA | 1,594,132 | (C)8→9 | pseudogene (3955/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,594,256 | (C)8→9 | pseudogene (3831/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,597,313 | (C)7→6 | pseudogene (774/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,606,796 | C→T | R233C (CGC→TGC) | lsrF → | 3‑hydroxy‑2,4‑pentadione 5‑phosphate thiolase |
| RA | 1,606,917 | T→C | V273A (GTT→GCT) | lsrF → | 3‑hydroxy‑2,4‑pentadione 5‑phosphate thiolase |
| RA | 1,612,010 | C→T | A106T (GCG→ACG) | yneG ← | conserved protein YneG |
| RA | 1,618,524 | T→C | T129A (ACT→GCT) | marC ← | inner membrane protein MarC |
| RA | 1,636,290 | T→C | G26G (GGA→GGG) | nohA ← | Qin prophage; putative prophage DNA‑packaging protein NohA |
| RA | 1,668,069 | G→A | R166C (CGC→TGC) | mlc ← | DNA‑binding transcriptional repressor Mlc |
| RA | 1,670,408 | A→G | D237G (GAC→GGC) | ynfM → | putative transporter YnfM |
| RA | 1,680,973 | A→G | intergenic (+34/‑3) | ydgI → / → folM | putative arginine:ornithine antiporter/dihydromonapterin reductase |
| RA | 1,685,542 | (C)6→5 | coding (1047/1404 nt) | fumC ← | fumarase C |
| RA | 1,711,998 | T→C | V159A (GTA→GCA) | nth → | endonuclease III |
| RA | 1,776,375 | A→G | A263A (GCA→GCG) | ydiF → | putative acetate‑CoA transferase |
| RA | 1,792,782 | T→C | intergenic (‑51/+27) | nlpC ← / ← btuD | NlpC/P60 family lipoprotein NlpC/vitamin B12 ABC transporter ATP binding subunit |
| RA | 1,793,863 | A→G | C83R (TGT→CGT) | btuE ← | thioredoxin/glutathione peroxidase |
| RA | 1,865,335 | C→T | R101H (CGT→CAT) | yeaE ← | methylglyoxal reductase YeaE |
| RA | 1,873,384 | A→G | K448K (AAA→AAG) | dgcJ → | putative diguanylate cyclase DgcJ |
| RA | 1,879,362 | (T)8→7 | intergenic (‑107/+41) | yeaQ ← / ← yoaG | PF04226 family protein YeaQ/DUF1869 domain‑containing protein YoaG |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,894,717 | T→C | L5L (TTA→TTG) | yoaH ← | UFP0181 family protein YoaH |
| RA | 1,899,621 | G→A | V399I (GTT→ATT) | pdeD → | putative c‑di‑GMP phosphodiesterase PdeD |
| RA | 1,901,309 | (C)6→7 | coding (277/1557 nt) | yoaE ← | putative inner membrane protein |
| RA | 1,906,464 | T→C | A199A (GCA→GCG) | rlmA ← | 23S rRNA m(1)G745 methyltransferase |
| RA | 1,921,182 | (C)5→6 | coding (960/1440 nt) | rsmF → | 16S rRNA m(5)C1407 methyltransferase |
| RA | 1,923,946 | (G)6→7 | coding (646/873 nt) | yebZ ← | putative inner membrane protein |
| RA | 1,928,727 | T→A | D38V (GAC→GTC) | ptrB ← | oligopeptidase B |
| RA | 1,934,624 | T→C | intergenic (‑20/+215) | edd ← / ← zwf | phosphogluconate dehydratase/NADP(+)‑dependent glucose‑6‑phosphate dehydrogenase |
| RA | 1,936,923 | T→C | V91A (GTT→GCT) | yebK → | DNA‑binding transcriptional repressor YebK |
| RA | 1,965,120 | G→A | Q358* (CAG→TAG) | flhB ← | flagellar biosynthesis protein FlhB |
| RA | 1,967,179 | T→C | T87A (ACT→GCT) | cheY ← | chemotaxis protein CheY |
| RA | 1,967,855 | T→C | D216G (GAC→GGC) | cheB ← | protein‑glutamate methylesterase/protein glutamine deamidase |
| RA | 1,974,881 | T→C | E148E (GAA→GAG) | cheA ← | chemotaxis protein CheA |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,996,183 | T→C | N217S (AAC→AGC) | sdiA ← | DNA‑binding transcriptional dual regulator SdiA |
| RA | 1,998,555 | G→A | P309L (CCG→CTG) | dcyD ← | D‑cysteine desulfhydrase |
| RA | 2,016,404 | T→C | A179A (GCT→GCC) | fliH → | flagellar biosynthesis protein FliH |
| RA | 2,031,164 | C→G | G385A (GGT→GCT) | dcm ← | DNA‑cytosine methyltransferase |
| RA | 2,033,739 | (T)8→9 | noncoding (91/91 nt) | rseX → | small regulatory RNA RseX |
| RA | 2,072,948 | T→C | D470D (GAT→GAC) | flu → | CP4‑44 prophage; self recognizing antigen 43 (Ag43) autotransporter |
| RA | 2,100,810 | T→C | A153A (GCA→GCG) | gnd ← | 6‑phosphogluconate dehydrogenase, decarboxylating |
| RA | 2,120,995 | T→C | N187S (AAC→AGC) | wcaJ ← | undecaprenyl‑phosphate glucose phosphotransferase |
| RA | 2,133,799 | T→C | E618E (GAA→GAG) | wzc ← | protein‑tyrosine kinase Wzc |
| RA | 2,165,573 | (C)6→7 | intergenic (+52/‑95) | yegP → / → yegQ | DUF1508 domain‑containing protein YegP/putative peptidase YegQ |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,180,672 | T→C | V193A (GTT→GCT) | yegU → | putative ADP‑ribosylglycohydrolase YegU |
| RA | 2,192,815 | T→C | intergenic (‑19/+244) | yehE ← / ← mrp | DUF2574 domain‑containing protein YehE/P‑loop NTPase family protein |
| RA | 2,193,578 | T→C | G197G (GGA→GGG) | mrp ← | P‑loop NTPase family protein |
| RA | 2,202,629 | (G)6→7 | coding (2351/3633 nt) | yehI → | DUF4132 domain‑containing protein YehI |
| RA | 2,202,630 | A→G | G784G (GGA→GGG) | yehI → | DUF4132 domain‑containing protein YehI |
| RA | 2,210,473 | (C)6→7 | coding (1374/1845 nt) | yehQ → | SWIM zinc finger domains‑containing protein YehQ |
| RA | 2,251,286 | T→C | G149G (GGT→GGC) | nfo → | endonuclease IV |
| RA | 2,259,447 | G→A | intergenic (‑151/+272) | psuK ← / ← fruA | putative pseudouridine kinase/fructose‑specific PTS multiphosphoryl transfer protein FruA |
| RA | 2,295,780 | T→C | N181D (AAC→GAC) | ccmC ← | heme trafficking system membrane protein CcmC |
| RA | 2,312,660 | G→A | N30N (AAC→AAT) | ompC ← | outer membrane porin C |
| RA | 2,317,538 | T→C | E780G (GAG→GGG) | rcsC ← | sensory histidine kinase RcsC |
| RA | 2,324,731 | A→T | D208V (GAT→GTT) | atoA → | acetyl‑CoA:acetoacetyl‑CoA transferase subunit beta |
| RA | 2,347,460 | T→C | V26A (GTG→GCG) | nrdB → | ribonucleoside‑diphosphate reductase 1 subunit beta |
| RA | 2,359,279 | T→C | T292A (ACC→GCC) | yfaV ← | putative transporter YfaV |
| RA | 2,376,098 | T→C | D241G (GAC→GGC) | menB ← | 1,4‑dihydroxy‑2‑naphthoyl‑CoA synthase |
| RA | 2,386,054 | G→A | R65R (AGG→AGA) | yfbL → | putative peptidase YfbL |
| RA | 2,429,677 | T→C | I188V (ATT→GTT) | purF ← | amidophosphoribosyltransferase |
| RA | 2,431,651 | T→C | T12A (ACG→GCG) | dedD ← | cell division protein DedD |
| RA | 2,446,579 | T→C | T299A (ACC→GCC) | aroC ← | chorismate synthase |
| RA | 2,462,889 | (C)9→8 | intergenic (+243/‑123) | fadL → / → yfdF | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF |
| RA | 2,499,137 | T→C | V156A (GTA→GCA) | ypdA → | sensory histidine kinase YpdA |
| RA | 2,501,698 | T→C | V190A (GTT→GCT) | ypdC → | putative AraC‑type DNA‑binding transcriptional regulator YpdC |
| RA | 2,502,375 | G→A | A704V (GCG→GTG) | fryA ← | putative PTS multiphosphoryl transfer protein FryA |
| RA | 2,527,823 | T→C | V293A (GTG→GCG) | yfeH → | putative solute:Na(+) symporter |
| RA | 2,589,906 | T→C | V771A (GTG→GCG) | acrD → | multidrug efflux pump RND permease AcrD |
| RA | 2,596,881 | A→G | intergenic (‑144/+24) | ypfJ ← / ← purC | uncharacterized protein YpfJ/phosphoribosylaminoimidazole‑succinocarboxamide synthase |
| RA | 2,602,017 | (C)7→8 | coding (200/2019 nt) | hyfB → | hydrogenase 4 component B |
| RA | 2,603,492 | T→C | F559L (TTT→CTT) | hyfB → | hydrogenase 4 component B |
| RA | 2,638,026 | (C)6→7 | coding (627/1179 nt) | bamB ← | outer membrane protein assembly factor BamB |
| RA | 2,695,419 | T→C | D42G (GAC→GGC) | purL ← | phosphoribosylformylglycinamide synthetase |
| RA | 2,725,940 | T→C | intergenic (‑194/+129) | kgtP ← / ← rrfG | alpha‑ketoglutarate:H(+) symporter/5S ribosomal RNA |
| RA | 2,731,168 | T→C | intergenic (‑11/+432) | rrsG ← / ← clpB | 16S ribosomal RNA/ClpB chaperone |
| RA | 2,732,082 | G→A | R698C (CGT→TGT) | clpB ← | ClpB chaperone |
| RA | 2,734,543 | (C)8→10 | coding (492/732 nt) | pgeF ← | polyphenol oxidase YfiH |
| RA | 2,736,212 | T→C | S23P (TCA→CCA) | bamD → | outer membrane protein assembly factor BamD |
| RA | 2,767,482 | T→C | intergenic (+127/‑228) | rnlB → / → yfjP | CP4‑57 prophage; antitoxin RnlB/CP4‑57 prophage; putative GTP‑binding protein YfjP |
| RA | 2,797,288 | A→G | R26R (CGA→CGG) | ygaV → | putative DNA‑binding transcriptional regulator YgaV |
| RA | 2,811,134 | A→G | H122R (CAC→CGC) | mprA → | DNA‑binding transcriptional repressor MprA |
| RA | 2,819,194 | G→A | intergenic (‑48/+187) | csrA ← / ← alaS | carbon storage regulator/alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor |
| RA | 2,827,043 | G→A | A218T (GCG→ACG) | srlE → | sorbitol‑specific PTS enzyme IIBC1 component |
| RA | 2,834,011 | G→A | A34T (GCC→ACC) | norW → | NADH:flavorubredoxin reductase |
| RA | 2,845,002 | G→A | N490N (AAC→AAT) | hycE ← | formate hydrogenlyase subunit HycE |
| MC JC | 2,857,096 | Δ2,538 bp | coding (4‑2541/2562 nt) | mutS → | DNA mismatch repair protein MutS |
| RA | 2,859,970 | T→C | F71L (TTT→CTT) | pphB → | phosphoprotein phosphatase 2 |
| RA | 2,886,819 | T→C | D134G (GAT→GGT) | cas3 ← | CRISPR‑associated endonuclease/helicase Cas3 |
| RA | 2,906,010 | G→A | W100* (TGG→TGA) | ygcG → | protein YgcG |
| RA | 2,942,448 | T→C | Q40Q (CAA→CAG) | gcvA ← | DNA‑binding transcriptional dual regulator GcvA |
| RA | 2,949,993 | (T)5→6 | coding (752/1332 nt) | argA → | N‑acetylglutamate synthase |
| RA | 2,976,076 | A→G | intergenic (‑62/+26) | aas ← / ← omrA | acyltransferase/small regulatory RNA OmrA |
| RA | 2,983,415 | A→G | V237A (GTG→GCG) | kduI ← | 5‑dehydro‑4‑deoxy‑D‑glucuronate isomerase |
| RA | 3,000,395 | C→T | D17D (GAC→GAT) | xdhA → | putative xanthine dehydrogenase molybdenum‑binding subunit XdhA |
| RA | 3,001,304 | (G)7→8 | coding (960/2259 nt) | xdhA → | putative xanthine dehydrogenase molybdenum‑binding subunit XdhA |
| RA | 3,002,278 | T→C | V645A (GTA→GCA) | xdhA → | putative xanthine dehydrogenase molybdenum‑binding subunit XdhA |
| RA | 3,052,554 | T→C | D322G (GAC→GGC) | ubiH ← | 2‑octaprenyl‑6‑methoxyphenol hydroxylase |
| RA | 3,054,245 | G→A | A199V (GCG→GTG) | pepP ← | proline aminopeptidase P II |
| RA | 3,068,157 | T→C | intergenic (‑77/+16) | yggE ← / ← argO | uncharacterized protein YggE/L‑arginine exporter |
| RA | 3,108,233 | A→G | F308S (TTT→TCT) | speC ← | ornithine decarboxylase, biosynthetic |
| RA | 3,121,258 | A→G | Y8H (TAT→CAT) | glcA ← | glycolate/lactate:H(+) symporter GlcA |
| RA | 3,146,661 | T→C | K26R (AAA→AGA) | yghW ← | DUF2623 domain‑containing protein YghW |
| RA | 3,244,143 | T→C | Y200C (TAC→TGC) | uxaC ← | D‑glucoronate/D‑galacturonate isomerase |
| RA | 3,245,135 | (T)8→7 | intergenic (‑394/‑89) | uxaC ← / → exuT | D‑glucoronate/D‑galacturonate isomerase/hexuronate transporter |
| RA | 3,272,907 | C→T | A217A (GCG→GCA) | garL ← | alpha‑dehydro‑beta‑deoxy‑D‑glucarate aldolase |
| RA | 3,284,724 | G→A | A14T (GCG→ACG) | agaC → | galactosamine‑specific PTS enzyme IIC component |
| RA | 3,305,770 | G→A | G16G (GGC→GGT) | mtr ← | tryptophan:H(+) symporter Mtr |
| RA | 3,309,066 | T→C | A701A (GCA→GCG) | pnp ← | polynucleotide phosphorylase |
| RA | 3,326,822 | T→C | L38L (CTA→CTG) | ftsH ← | ATP‑dependent zinc metalloprotease FtsH |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,362,127 | A→G | T6A (ACA→GCA) | yhcA → | putative fimbrial chaperone YhcA |
| RA | 3,375,276 | T→C | G136G (GGT→GGC) | dcuD → | putative transporter DcuD |
| RA | 3,388,726 | A→G | V134A (GTT→GCT) | aaeA ← | aromatic carboxylic acid efflux pump membrane fusion protein |
| RA | 3,399,078 | A→G | L301L (TTG→CTG) | mreC ← | cell shape determining protein MreC |
| RA | 3,407,849 | G→A | M81I (ATG→ATA) | panF → | pantothenate:Na(+) symporter |
| RA | 3,437,256 | C→T | L247L (CTG→TTG) | trkA → | NAD‑binding component of Trk potassium transporters |
| RA | 3,461,863 | C→T | I132I (ATC→ATT) | gspH → | Type II secretion system protein GspH |
| RA | 3,491,988 | C→T | G104S (GGC→AGC) | ppiA ← | peptidyl‑prolyl cis‑trans isomerase A |
| RA | 3,515,696 | T→C | Y73C (TAC→TGC) | dam ← | DNA adenine methyltransferase |
| RA | 3,542,962 | T→C | *79Q (TAA→CAA) | feoC → | ferrous iron transport protein FeoC |
| RA | 3,545,166 | T→C | R95R (CGT→CGC) | yhgH → | DNA utilization protein YhgH |
| RA | 3,545,888 | T→C | L89L (TTA→CTA) | nfuA → | iron‑sulfur cluster carrier protein NfuA |
| RA | 3,550,178 | T→C | T766A (ACT→GCT) | malP ← | maltodextrin phosphorylase |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,581,070 | (A)7→8 | intergenic (‑54/‑68) | ryhB ← / → yhhY | small regulatory RNA RyhB/N‑acetyltransferase YhhY |
| RA | 3,588,812 | C→T | E123E (GAG→GAA) | ugpC ← | sn‑glycerol 3‑phosphate ABC transporter ATP binding subunit |
| RA | 3,697,872 | T→C | V472A (GTG→GCG) | bcsE → | c‑di‑GMP‑binding protein BcsE |
| RA | 3,800,268 | (T)8→9 | coding (698/699 nt) | waaY ← | lipopolysaccharide core heptose (II) kinase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,835,396 | T→C | K178K (AAA→AAG) | yicJ ← | putative xyloside transporter YicJ |
| RA | 3,860,630 | (C)5→4 | coding (348/894 nt) | yidL → | putative DNA‑binding transcriptional regulator YidL |
| RA | 3,878,249 | T→C | Q624R (CAG→CGG) | gyrB ← | DNA gyrase subunit B |
| RA | 3,894,503 | T→C | V208A (GTC→GCC) | yieE → | putative phosphopantetheinyl transferase |
| RA | 3,924,004 | T→C | I544V (ATT→GTT) | mnmG ← | 5‑carboxymethylaminomethyluridine‑tRNA synthase subunit MnmG |
| RA | 3,965,557 | (T)8→7 | coding (74/1266 nt) | rhlB ← | ATP‑dependent RNA helicase RhlB |
| RA | 3,969,103 | A→G | T25A (ACC→GCC) | wzzE → | enterobacterial common antigen polysaccharide co‑polymerase |
| RA | 3,970,032 | (G)6→7 | coding (1002/1047 nt) | wzzE → | enterobacterial common antigen polysaccharide co‑polymerase |
| RA | 3,997,767 | T→C | G195G (GGT→GGC) | yigB → | 5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase |
| RA | 4,043,008 | A→G | L198L (CTA→CTG) | srkA → | stress response kinase A |
| RA | 4,085,064 | C→T | A253A (GCG→GCA) | fdoG ← | formate dehydrogenase O subunit alpha |
| RA | 4,156,864 | C→T | G5G (GGC→GGT) | argH → | argininosuccinate lyase |
| RA | 4,163,215 | A→G | V19A (GTG→GCG) | trmA ← | tRNA m(5)U54 methyltransferase |
| RA | 4,173,834 | A→G | E251E (GAA→GAG) | birA → | DNA‑binding transcriptional repressor/biotin‑[acetyl‑CoA‑carboxylase] ligase BirA |
| RA | 4,183,531 | A→G | T763A (ACC→GCC) | rpoB → | RNA polymerase subunit beta |
| RA | 4,200,176 | (G)6→7 | intergenic (+82/‑105) | yjaG → / → hupA | conserved protein YjaG/DNA‑binding protein HU‑alpha |
| RA | 4,219,224 | T→C | V210A (GTA→GCA) | aceK → | isocitrate dehydrogenase kinase/phosphatase |
| RA | 4,224,648 | A→G | N274S (AAC→AGC) | metH → | cobalamin‑dependent methionine synthase |
| RA | 4,278,421 | C→T | intergenic (‑355/‑58) | ryjA ← / → ghxP | small RNA RyjA/guanine/hypoxanthine transporter GhxP |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,317,069 | C→T | G50G (GGG→GGA) | phnM ← | RPnTP hydrolase |
| RA | 4,324,474 | A→G | V231A (GTC→GCC) | phnC ← | phosphonate ABC transporter ATP binding subunit |
| RA | 4,329,694 | T→C | L112P (CTC→CCC) | yjcZ → | uncharacterized protein YjcZ |
| RA | 4,330,680 | A→G | D60G (GAC→GGC) | proP → | osmolyte:H(+) symporter ProP |
| RA | 4,348,226 | A→G | D173D (GAT→GAC) | dcuB ← | anaerobic C4‑dicarboxylate transporter DcuB |
| RA | 4,364,164 | (C)5→4 | coding (879/1698 nt) | dsbD ← | protein disulfide oxidoreductase ‑ DsbDreduced |
| RA | 4,395,322 | C→T | A419A (GCC→GCT) | nnr → | NAD(P)HX epimerase/NAD(P)HX dehydratase |
| RA | 4,422,036 | C→T | A110V (GCC→GTC) | ulaC → | L‑ascorbate specific PTS enzyme IIA component |
| RA | 4,440,503 | A→G | V238A (GTG→GCG) | ytfL ← | putative inner membrane protein |
| RA | 4,445,549 | A→G | T480A (ACC→GCC) | tamB → | translocation and assembly module subunit TamB |
| RA | 4,448,009 | G→A | G39D (GGC→GAC) G79G (GGC→GGT) |
ytfP → yzfA ← |
gamma‑glutamylamine cyclotransferase family protein YtfP putative YjfA |
| RA | 4,487,255 | C→T | N346N (AAC→AAT) | lptF → | lipopolysaccharide transport system protein LptF |
| RA | 4,501,271 | T→C | P4P (CCT→CCC) | yjgZ → | KpLE2 phage‑like element; uncharacterized protein YjgZ |
| RA | 4,515,070 | G→A | D536D (GAC→GAT) | fecA ← | ferric citrate outer membrane transporter |
| RA | 4,537,245 | G→A | P117L (CCG→CTG) | nanS ← | N‑acetyl‑9‑O‑acetylneuraminate esterase |
| RA | 4,548,979 | G→A | D58N (GAT→AAT) | fimH → | type 1 fimbriae D‑mannose specific adhesin |
| RA | 4,585,505 | C→T | L419L (CTG→CTA) | hsdR ← | type I restriction enzyme EcoKI endonuclease component |
| RA | 4,592,406 | Δ1 bp | coding (750/1656 nt) | tsr → | methyl‑accepting chemotaxis protein Tsr |
| RA | 4,606,215 | (G)8→9 | noncoding (72/87 nt) | leuP ← | tRNA‑Leu |
| RA | 4,606,330 | (G)8→10 | noncoding (72/87 nt) | leuQ ← | tRNA‑Leu |
| RA | 4,608,076 | A→G | T92A (ACT→GCT) | holD → | DNA polymerase III subunit psi |
| RA | 4,628,092 | G→A | A260T (GCG→ACG) | nadR → | DNA‑binding transcriptional repressor/NMN adenylyltransferase NadR |
| RA | 4,630,159 | C→T | A122T (GCC→ACC) | ettA ← | energy‑dependent translational throttle protein EttA |
| RA | 4,638,175 | A→G | intergenic (+55/‑3) | creC → / → creD | sensory histidine kinase CreC/putative inner membrane protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 223870–224771 | 225464–224800 | 30–1595 | 12 [10] | [10] 11 | [rrsH]–ileV | [rrsH],ileV |
| * | * | ÷ | NC_000913 | 225664–225720 | 225898–225738 | 19–235 | 11 [10] | [10] 14 | [rrlH] | [rrlH] |
| * | * | ÷ | NC_000913 | 226146–226968 | 228561–226989 | 22–2416 | 11 [9] | [9] 13 | rrlH | 23S ribosomal RNA |
| * | * | ÷ | NC_000913 | 1633759–1634066 | 1634909–1634644 | 579–1151 | 13 [10] | [10] 14 | [pinQ]–[ydfN] | [pinQ],tfaQ,[ydfN] |
| * | * | ÷ | NC_000913 | 3423770–3424233 | 3424518–3424242 | 10–749 | 12 [9] | [10] 11 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 12 (0.200) | 73 (1.370) | 51/244 | 0.0 | 88.2% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 9 (0.170) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 12 (0.200) | 35 (0.660) | 25/244 | 0.8 | 78.1% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 9 (0.170) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 3363001 = | 137 (2.270) | 117 (1.950) | 66/274 | 0.0 | 63.2% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 0 (0.000) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 77 (1.280) | 49/276 | 0.1 | 93.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 5 (0.080) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||