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 | 3,118 | G→A | A106A (GCG→GCA) | thrB → | homoserine kinase |
| RA | 27,613 | T→A | I107I (ATT→ATA) | rihC → | ribonucleoside hydrolase RihC |
| RA | 81,437 | A→G | R174R (CGT→CGC) | leuB ← | 3‑isopropylmalate dehydrogenase |
| RA | 89,890 | T→A | M86K (ATG→AAG) | mraZ → | DNA‑binding transcriptional repressor MraZ |
| RA | 94,873 | T→A | L75Q (CTG→CAG) | murF → | D‑alanyl‑D‑alanine‑adding enzyme |
| RA | 134,658 | A→G | N91D (AAC→GAC) | yacL → | UPF0231 family protein YacL |
| RA | 148,936 | G→A | T222T (ACC→ACT) | panB ← | 3‑methyl‑2‑oxobutanoate hydroxymethyltransferase |
| RA | 153,617 | T→C | S604G (AGT→GGT) | htrE ← | putative fimbrial usher protein HtrE |
| RA | 157,376 | C→T | M119I (ATG→ATA) | folK ← | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine diphosphokinase |
| RA | 168,655 | Δ1 bp | coding (1172/2244 nt) | fhuA → | ferrichrome outer membrane transporter/phage receptor |
| RA | 215,261 | A→T | intergenic (+6/‑8) | arfB → / → nlpE | peptidyl‑tRNA hydrolase, ribosome rescue factor/lipoprotein NlpE |
| RA | 218,480 | C→T | R99H (CGT→CAT) | proS ← | proline‑‑tRNA ligase |
| RA | 233,614 | C→T | M114I (ATG→ATA) | mltD ← | membrane‑bound lytic murein transglycosylase D |
| RA | 236,552 | C→A | H162Q (CAC→CAA) | dnaQ → | DNA polymerase III subunit epsilon |
| RA | 245,180 | C→A | R209L (CGT→CTT) | yafK ← | L,D‑transpeptidase domain‑containing protein YafK |
| RA | 251,954 | T→C | intergenic (+1/‑51) | dinB → / → yafN | DNA polymerase IV/antitoxin YafN |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 294,118 | G→A | L228F (CTT→TTT) | yagM ← | CP4‑6 prophage; protein YagM |
| RA | 306,370 | C→T | G150S (GGC→AGC) | ecpD ← | fimbrial adhesin EcpD |
| RA | 309,218 | Δ1 bp | coding (115/2526 nt) | ecpC ← | putative fimbrial usher protein EcpC |
| RA | 310,270 | G→A | G134G (GGC→GGT) | ecpA ← | common pilus major subunit |
| RA | 349,262 | C→T | A194V (GCC→GTC) | prpB → | 2‑methylisocitrate lyase |
| RA | 353,381 | G→A | V226M (GTG→ATG) | prpE → | propionyl‑CoA synthetase |
| RA | 359,674 | G→A | G62G (GGG→GGA) | cynS → | cyanase |
| RA | 361,727 | (T)6→7 | coding (134/612 nt) | lacA ← | galactoside O‑acetyltransferase |
| RA | 366,168 | A→T | D46E (GAT→GAA) | lacZ ← | beta‑galactosidase |
| RA | 385,106 | T→C | intergenic (‑490/‑126) | yaiS ← / → tauA | putative deacetylase YaiS/taurine ABC transporter periplasmic binding protein |
| RA | 397,213 | A→T | Q192L (CAG→CTG) | sbmA → | peptide antibiotic/peptide nucleic acid transporter |
| RA | 402,171 | T→A | L142Q (CTG→CAG) | phoA → | alkaline phosphatase |
| RA | 435,879 | T→A | D82E (GAT→GAA) | thiL → | thiamine monophosphate kinase |
| RA | 447,488 | T→C | N73S (AAT→AGT) | cyoE ← | heme O synthase |
| RA | 448,092 | Δ1 bp | coding (569/615 nt) | cyoC ← | cytochrome bo3 ubiquinol oxidase subunit 3 |
| RA | 453,654 | C→G | D172H (GAT→CAT) | yajG ← | putative lipoprotein YajG |
| RA | 458,055 | A→T | A210A (GCA→GCT) | clpX → | ATP‑dependent Clp protease ATP‑binding subunit ClpX |
| RA | 475,050 | G→A | Q38* (CAG→TAG) | tesB ← | acyl‑CoA thioesterase II |
| RA | 475,469 | C→T | P31S (CCG→TCG) | ybaY → | PF09619 family lipoprotein YbaY |
| RA | 511,329 | G→T | C17* (TGC→TGA) C17* (TGC→TGA) |
copA ← copA ← |
Cu(+) exporting P‑type ATPase Cu(+) exporting P‑type ATPase |
| RA | 514,719 | C→T | W47* (TGG→TGA) | ybbJ ← | NfeD‑like family protein |
| RA | 522,992 | C→T | intergenic (+162/‑269) | ybbP → / → rhsD | putative ABC transporter membrane subunit YbbP/protein RhsD |
| RA | 548,605 | G→A | E83E (GAG→GAA) | ylbE → | DUF1116 domain‑containing protein YlbE |
| RA | 551,066 | G→T | A210S (GCC→TCC) | ybcF → | putative carbamate kinase |
| RA | 578,636 | A→T | Y86* (TAT→TAA) | borD ← | DLP12 prophage; prophage lipoprotein BorD |
| RA | 584,131 | C→A | R151R (CGG→AGG) | appY → | DNA‑binding transcriptional activator AppY |
| RA | 585,822 | (T)7→8 | intergenic (‑189/+325) | ompT ← / ← envY | outer membrane protease VII (outer membrane protein 3b)/DNA‑binding transcriptional activator EnvY |
| RA | 589,509 | G→A | A482A (GCC→GCT) | nfrA ← | bacteriophage N4 receptor, outer membrane protein |
| RA | 602,184 | G→A | E76K (GAA→AAA) | pheP → | phenylalanine:H(+) symporter PheP |
| RA | 616,523 | G→A | A789A (GCG→GCA) | entF → | apo‑serine activating enzyme |
| RA | 649,472 | G→A | Q34* (CAA→TAA) | citF ← | citrate lyase alpha subunit |
| RA | 651,373 | G→A | R162C (CGT→TGT) | citC ← | citrate lyase synthetase |
| RA | 693,279 | G→A | R34C (CGC→TGC) | ybeZ ← | PhoH‑like protein |
| RA | 713,939 | C→T | L128L (CTG→TTG) | pgm → | phosphoglucomutase |
| RA | 714,976 | G→A | L473L (CTG→CTA) | pgm → | phosphoglucomutase |
| RA | 720,905 | A→G | intergenic (+65/+151) | ybfK → / ← kdpE | uncharacterized protein YbfK/DNA‑binding transcriptional activator KdpE |
| RA | 734,251 | C→T | pseudogene (32/1434 nt) | ybfO → | conserved protein, rhs‑like YbfO |
| RA | 742,374 | C→T | T61T (ACG→ACA) | dtpD ← | dipeptide:H(+) symporter DtpD |
| RA | 747,445 | G→T | P109T (CCT→ACT) | abrB ← | putative regulator |
| RA | 807,445 | C→A | A155A (GCG→GCT) | ybhB ← | putative kinase inhibitor |
| RA | 808,820 | G→T | G146G (GGC→GGA) | bioA ← | adenosylmethionine‑8‑amino‑7‑oxononanoate aminotransferase |
| RA | 812,748 | C→T | A160V (GCA→GTA) | bioD → | dethiobiotin synthetase |
| RA | 862,428 | A→T | L60Q (CTG→CAG) | ybiW ← | putative pyruvate formate lyase |
| RA | 869,465 | T→C | L19L (TTG→CTG) | gsiB → | glutathione ABC transporter periplasmic binding protein |
| RA | 871,477 | C→T | Q171* (CAG→TAG) | gsiC → | glutathione ABC transporter membrane subunit GsiC |
| RA | 895,153 | G→A | G55S (GGC→AGC) | potG → | putrescine ABC transporter ATP binding subunit |
| RA | 916,809 | C→A | R113S (CGT→AGT) | ybjD → | DUF2813 domain‑containing protein YbjD |
| RA | 937,762 | G→A | G131S (GGC→AGC) | lolA → | outer membrane lipoprotein carrier protein |
| RA | 960,227 | A→G | intergenic (+132/‑37) | aroA → / → ycaL | 3‑phosphoshikimate 1‑carboxyvinyltransferase/periplasmic protease YcaL |
| RA | 974,632 | C→A | P105Q (CCG→CAG) | mukF → | chromosome partitioning protein MukF |
| RA | 982,951 | C→T | intergenic (+57/‑124) | ldtD → / → ycbK | L,D‑transpeptidase LdtD/DUF882 domain‑containing protein YcbK |
| RA | 1,008,814 | C→T | A324V (GCG→GTG) | rlmL → | fused 23S rRNA m(2)G2445 methyltransferase and 23S rRNA m(7)G2069 methyltransferase |
| RA | 1,020,384 | (A)7→8 | intergenic (‑331/+26) | ompA ← / ← sulA | outer membrane porin A/cell division inhibitor SulA |
| RA | 1,045,600 | A→G | I68I (ATT→ATC) | gfcE ← | putative exopolysaccharide export lipoprotein GfcE |
| RA | 1,047,811 | C→T | M45I (ATG→ATA) | gfcD ← | putative lipoprotein GfcD |
| RA | 1,069,647 | A→G | S65P (TCG→CCG) | rutG ← | pyrimidine:H(+) symporter |
| RA | 1,110,221 | A→G | H296R (CAT→CGT) | opgG → | osmoregulated periplasmic glucans (OPGs) biosynthesis protein G |
| RA | 1,113,489 | G→A | intergenic (+83/‑90) | opgH → / → yceK | osmoregulated periplasmic glucans (OPGs) biosynthesis protein H/DUF1375 domain‑containing lipoprotein YceK |
| RA | 1,113,730 | T→A | I51N (ATC→AAC) | yceK → | DUF1375 domain‑containing lipoprotein YceK |
| RA | 1,144,461 | T→A | intergenic (‑94/‑41) | rne ← / → yceQ | ribonuclease E/DUF2655 domain‑containing protein YceQ |
| RA | 1,166,055 | C→T | intergenic (+370/‑30) | ycfP → / → ndh | UPF0227 protein YcfP/NADH:quinone oxidoreductase II |
| RA | 1,183,061 | G→A | A187V (GCG→GTG) | potC ← | spermidine preferential ABC transporter membrane subunit PotC |
| RA | 1,183,867 | G→A | T193M (ACG→ATG) | potB ← | spermidine preferential ABC transporter membrane subunit PotB |
| RA | 1,184,272 | G→T | S58* (TCG→TAG) | potB ← | spermidine preferential ABC transporter membrane subunit PotB |
| RA | 1,199,503 | (A)5→4 | coding (809/894 nt) | lit → | e14 prophage; cell death peptidase Lit |
| RA | 1,238,385 | T→G | L272R (CTG→CGG) | dadA → | D‑amino acid dehydrogenase |
| RA | 1,239,692 | T→C | Y272H (TAC→CAC) | dadX → | alanine racemase 2 |
| RA | 1,257,004 | A→T | I270N (ATC→AAC) | ychF ← | redox‑responsive ATPase YchF |
| RA | 1,290,291 | A→C | Q17P (CAG→CCG) | rssB → | regulator of RpoS |
| RA | 1,301,472 | C→T | V97V (GTC→GTT) | oppA → | oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,304,336 | +T | coding (503/909 nt) | oppC → | murein tripeptide ABC transporter/oligopeptide ABC transporter inner membrane subunit OppC |
| RA | 1,311,270 | T→C | V61A (GTT→GCT) | tonB → | Ton complex subunit TonB |
| RA | 1,319,991 | G→A | P465L (CCG→CTG) | trpD ← | anthranilate synthase subunit TrpD |
| RA | 1,321,337 | G→A | N16N (AAC→AAT) | trpD ← | anthranilate synthase subunit TrpD |
| RA | 1,353,437 | A→T | T64T (ACT→ACA) | sapD ← | putrescine ABC exporter ATP binding protein SapD |
| RA | 1,367,811 | G→A | I34I (ATC→ATT) | pspF ← | DNA‑binding transcriptional dual regulator PspF |
| RA | 1,373,097 | G→A | V397M (GTG→ATG) | ycjN → | putative ABC transporter periplasmic binding protein YcjN |
| RA | 1,411,109 | A→T | D280E (GAT→GAA) | ttcA ← | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| RA | 1,452,220 | G→A | P475S (CCT→TCT) | paaZ ← | oxepin‑CoA hydrolase/3‑oxo‑5,6‑dehydrosuberyl‑CoA semialdehyde dehydrogenase |
| RA | 1,475,586 | C→T | P148L (CCG→CTG) | ydbD → | DUF2773 domain‑containing protein YdbD |
| RA | 1,478,850 | C→T | L209L (CTG→TTG) | ynbB → | putative CDP‑diglyceride synthase |
| RA | 1,483,915 | G→A | L285L (CTG→CTA) | hrpA → | ATP‑dependent RNA helicase HrpA |
| RA | 1,506,257 | C→T | A29V (GCG→GTG) | sutR → | DNA‑binding transcriptional dual regulator SutR |
| RA | 1,508,746 | G→A | intergenic (+4/+88) | rlhA → / ← yncJ | 23S rRNA 5‑hydroxycytidine C2501 synthase/protein YncJ |
| RA | 1,513,132 | G→A | V106M (GTG→ATG) | ydcT → | putative ABC transporter ATP‑binding protein YdcT |
| RA | 1,527,350 | G→A | intergenic (+198/‑540) | yncH → / → rhsE | DUF5445 domain‑containing protein YncH/RhsE protein in rhs element |
| RA | 1,539,530 | A→G | S1021P (TCC→CCC) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,542,678 | T→C | Q461Q (CAA→CAG) | narU ← | nitrate/nitrite transporter NarU |
| RA | 1,549,287 | C→A | S629S (TCC→TCA) | fdnG → | formate dehydrogenase N subunit alpha |
| RA | 1,582,328 | T→C | D66G (GAT→GGT) | ydeN ← | putative sulfatase |
| RA | 1,610,848 | C→T | intergenic (‑168/+59) | uxaB ← / ← dgcF | tagaturonate reductase/putative diguanylate cyclase DgcF |
| RA | 1,612,952 | G→A | S100S (TCC→TCT) | glsB ← | glutaminase 2 |
| RA | 1,615,877 | A→T | T39S (ACA→TCA) | yneK → | protein YneK |
| RA | 1,621,770 | A→G | I147V (ATC→GTC) | ydeE → | dipeptide exporter |
| RA | 1,625,496 | A→G | F629L (TTT→CTT) | dcp ← | peptidyl‑dipeptidase Dcp |
| RA | 1,660,717 | G→A | A54A (GCG→GCA) | ynfF → | putative selenate reductase YnfF |
| RA | 1,662,456 | T→A | L634* (TTG→TAG) | ynfF → | putative selenate reductase YnfF |
| RA | 1,671,696 | T→C | intergenic (+12/‑81) | asr → / → ydgU | acid shock protein/uncharacterized protein YdgU |
| RA | 1,706,877 | A→T | D177V (GAT→GTT) | rsxB → | SoxR [2Fe‑2S] reducing system protein RsxB |
| RA | 1,722,167 | C→T | A16V (GCC→GTC) | ydhK → | putative transporter YdhK |
| RA | 1,728,574 | C→T | A76A (GCC→GCT) | rnt → | RNase T |
| RA | 1,730,699 | C→T | A538V (GCT→GTT) | lhr → | putative ATP‑dependent helicase Lhr |
| RA | 1,738,556 | A→G | H238R (CAT→CGT) | purR → | DNA‑binding transcriptional repressor PurR |
| RA | 1,748,585 | T→A | R485R (CGT→CGA) | ydhS → | FAD/NAD(P) binding domain‑containing protein YdhS |
| RA | 1,767,394 | T→C | H431R (CAC→CGC) | ydiJ ← | putative FAD‑linked oxidoreductase |
| RA | 1,787,398 | (T)5→6 | intergenic (‑286/‑47) | ppsA ← / → ppsR | phosphoenolpyruvate synthetase/posphoenolpyruvate synthetase regulatory protein |
| RA | 1,789,895 | C→T | L450L (TTG→TTA) | ydiU ← | UPF0061 family protein YdiU |
| RA | 1,810,695 | T→C | M162T (ATG→ACG) | ydjM → | putative inner membrane protein regulated by LexA |
| RA | 1,831,779 | C→T | A68A (GCG→GCA) | astC ← | succinylornithine transaminase |
| RA | 1,852,829 | C→T | R384H (CGC→CAC) | ydjE ← | putative transporter YdjE |
| RA | 1,855,607 | A→T | L122* (TTG→TAG) | ydjG ← | NADH‑dependent methylglyoxal reductase |
| RA | 1,870,272 | T→C | intergenic (+34/‑113) | yeaH → / → cdgI | DUF444 domain‑containing protein YeaH/putative c‑di‑GMP binding protein CdgI |
| RA | 1,875,384 | G→A | Q65* (CAA→TAA) | nimR ← | DNA‑binding transcriptional repressor NimR |
| RA | 1,882,216 | A→T | Q102L (CAG→CTG) | dmlA → | D‑malate/3‑isopropylmalate dehydrogenase (decarboxylating) |
| RA | 1,900,559 | C→A | E343* (GAA→TAA) | yoaE ← | putative inner membrane protein |
| RA | 1,907,906 | C→T | intergenic (‑315/+355) | yobF ← / ← yebO | DUF2527 domain‑containing protein YobF/uncharacterized protein YebO |
| RA | 1,935,168 | C→T | D383N (GAT→AAT) | zwf ← | NADP(+)‑dependent glucose‑6‑phosphate dehydrogenase |
| RA | 1,942,614 | A→G | intergenic (‑31/‑48) | znuA ← / → znuC | Zn(2(+)) ABC transporter periplasmic binding protein/Zn(2(+)) ABC transporter ATP binding subunit |
| RA | 1,990,813 | T→A | V378E (GTG→GAG) | tyrP → | tyrosine:H(+) symporter |
| RA | 2,055,073 | G→A | G5S (GGC→AGC) | amn → | AMP nucleosidase |
| RA | 2,066,740 | A→G | G194G (GGT→GGC) | insH‑6 ← | CP4‑44 prophage; IS5 transposase and trans‑activator |
| RA | 2,082,090 | T→C | N153S (AAC→AGC) | dacD ← | D‑alanyl‑D‑alanine carboxypeptidase DacD |
| RA | 2,101,774 | T→C | intergenic (‑30/+121) | wbbL ← / ← insH‑7 | interrupted rhamnosyltransferase WbbL/IS5 transposase and trans‑activator |
| RA | 2,103,170 | T→C | pseudogene (220/446 nt) | wbbL ← | interrupted rhamnosyltransferase WbbL |
| RA | 2,124,626 | G→T | A374E (GCG→GAG) | wcaI ← | putative colanic biosynthesis glycosyl transferase |
| RA | 2,128,919 | T→C | L244L (TTA→TTG) | wcaE ← | putative colanic acid biosynthesis glycosyl transferase |
| RA | 2,142,743 | G→A | P69L (CCC→CTC) | udk ← | uridine/cytidine kinase |
| RA | 2,153,777 | T→C | noncoding (132/136 nt) | sibB → | small RNA SibB |
| RA | 2,158,945 | T→C | V187A (GTC→GCC) | mdtC → | multidrug efflux pump RND permease subunit MdtC |
| RA | 2,182,770 | C→A | A4A (GCG→GCT) | yegW ← | putative DNA‑binding transcriptional regulator YegW |
| RA | 2,185,882 | A→T | intergenic (‑86/‑35) | rcnR ← / → rcnA | DNA‑binding transcriptional repressor RcnR/Ni(2(+))/Co(2(+)) exporter |
| RA | 2,192,383 | A→G | intergenic (‑161/+132) | yehD ← / ← yehE | putative fimbrial protein YehD/DUF2574 domain‑containing protein YehE |
| RA | 2,200,118 | C→T | intergenic (+2820/‑161) | yehF → / → yehI | putative protein YehF/DUF4132 domain‑containing protein YehI |
| RA | 2,202,498 | A→T | A740A (GCA→GCT) | yehI → | DUF4132 domain‑containing protein YehI |
| RA | 2,204,258 | T→C | L96P (CTA→CCA) | yehK → | uncharacterized protein YehK |
| RA | 2,222,467 | G→A | D95N (GAT→AAT) | dld → | D‑lactate dehydrogenase |
| RA | 2,234,328 | G→A | G99D (GGC→GAC) | preT → | NAD‑dependent dihydropyrimidine dehydrogenase subunit PreT |
| RA | 2,240,203 | T→A | Q49L (CAA→CTA) | mglB ← | D‑galactose/methyl‑galactoside ABC transporter periplasmic binding protein |
| RA | 2,243,335 | A→G | T106T (ACT→ACC) | folE ← | GTP cyclohydrolase 1 |
| RA | 2,248,232 | T→A | N101Y (AAC→TAC) | lysP ← | lysine:H(+) symporter |
| RA | 2,259,563 | T→C | intergenic (‑267/+156) | psuK ← / ← fruA | putative pseudouridine kinase/fructose‑specific PTS multiphosphoryl transfer protein FruA |
| RA | 2,276,072 | T→C | F267S (TTT→TCT) | yejE → | putative oligopeptide ABC transporter membrane subunit YejE |
| RA | 2,295,698 | C→T | G208D (GGC→GAC) | ccmC ← | heme trafficking system membrane protein CcmC |
| RA | 2,313,055 | A→G | intergenic (‑306/‑29) | ompC ← / → micF | outer membrane porin C/small regulatory RNA MicF |
| RA | 2,356,245 | C→T | S242L (TCA→TTA) | glpC → | anaerobic glycerol‑3‑phosphate dehydrogenase subunit C |
| RA | 2,360,002 | C→T | E51K (GAA→AAA) | yfaV ← | putative transporter YfaV |
| RA | 2,365,594 | C→T | L9L (TTG→TTA) | ais ← | putative lipopolysaccharide core heptose(II)‑phosphate phosphatase |
| RA | 2,371,842 | T→A | L312* (TTG→TAG) | arnT → | lipid IVA 4‑amino‑4‑deoxy‑L‑arabinosyltransferase |
| RA | 2,374,272 | T→C | L244L (TTA→TTG) | menE ← | o‑succinylbenzoate‑‑CoA ligase |
| RA | 2,387,378 | A→G | S149G (AGC→GGC) | yfbM → | DUF1877 domain‑containing protein YfbM |
| RA | 2,395,206 | A→T | V47E (GTG→GAG) | nuoK ← | NADH:quinone oxidoreductase subunit K |
| RA | 2,399,514 | T→C | K218E (AAA→GAA) | nuoG ← | NADH:quinone oxidoreductase subunit G |
| RA | 2,426,400 | G→T | S130* (TCG→TAG) | hisJ ← | histidine ABC transporter periplasmic binding protein |
| RA | 2,428,535 | Δ1 bp | coding (92/570 nt) | ubiX ← | flavin prenyltransferase |
| RA | 2,460,346 | T→A | K42* (AAG→TAG) | fadI ← | 3‑ketoacyl‑CoA thiolase FadI |
| RA | 2,461,596 | C→T | N97N (AAC→AAT) | fadL → | long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor |
| RA | 2,465,985 | A→C | T229P (ACC→CCC) | yfdC → | inner membrane protein YfdC |
| RA | 2,497,234 | C→A | A354A (GCG→GCT) | alaC ← | glutamate‑‑pyruvate aminotransferase AlaC |
| RA | 2,513,581 | C→T | S180S (TCC→TCT) | nupC → | nucleoside:H(+) symporter NupC |
| RA | 2,522,542 | C→T | intergenic (‑65/+187) | xapR ← / ← xapB | DNA‑binding transcriptional activator XapR/xanthosine:H(+) symporter XapB |
| RA | 2,539,484 | T→A | N34Y (AAT→TAT) | cysM ← | cysteine synthase B |
| RA | 2,555,565 | G→T | A55E (GCG→GAG) | eutK ← | putative structural protein, ethanolamine utilization microcompartment |
| RA | 2,557,470 | A→G | Y404H (TAC→CAC) | eutB ← | ethanolamine ammonia‑lyase subunit alpha |
| RA | 2,562,119 | C→T | G3G (GGC→GGT) | yffO → | CPZ‑55 prophage; uncharacterized protein YffO |
| RA | 2,574,860 | A→T | C48* (TGT→TGA) | eutQ ← | putative ethanolamine utilization protein EutQ |
| RA | 2,580,405 | A→G | E257G (GAA→GGA) | tktB → | transketolase 2 |
| RA | 2,590,292 | A→G | M900V (ATG→GTG) | acrD → | multidrug efflux pump RND permease AcrD |
| RA | 2,592,993 | C→T | intergenic (+31/+79) | ypfN → / ← ypfH | UPF0370 protein YpfN/esterase YpfH |
| RA | 2,634,630 | (A)6→7 | coding (399/1371 nt) | xseA → | exodeoxyribonuclease VII subunit XseA |
| RA | 2,638,485 | A→G | I56I (ATT→ATC) | bamB ← | outer membrane protein assembly factor BamB |
| RA | 2,647,072 | T→C | D85G (GAT→GGT) | pbpC ← | peptidoglycan glycosyltransferase PbpC |
| RA | 2,653,478 | C→A | intergenic (+139/‑377) | sseA → / → ryfA | 3‑mercaptopyruvate sulfurtransferase/small regulatory RNA RyfA |
| RA | 2,659,676 | A→T | F71I (TTT→ATT) | iscA ← | iron‑sulfur cluster insertion protein IscA |
| RA | 2,677,674 | C→A | D230Y (GAT→TAT) | yphE ← | putative ABC transporter ATP‑binding protein YphE |
| RA | 2,695,642 | A→G | intergenic (‑99/‑159) | purL ← / → mltF | phosphoribosylformylglycinamide synthetase/membrane‑bound lytic murein transglycosylase F |
| RA | 2,712,311 | G→A | L152L (CTG→TTG) | yfiC ← | tRNA m(6)A37 methyltransferase |
| JC JC | 2,737,118 | IS1 (+) +8 bp | intergenic (+235/‑29) | bamD → / → raiA | outer membrane protein assembly factor BamD/stationary phase translation inhibitor and ribosome stability factor |
| RA | 2,750,090 | C→T | intergenic (+30/+25) | yfjD → / ← grpE | putative inner membrane protein/nucleotide exchange factor GrpE |
| RA | 2,751,434 | T→C | S202P (TCT→CCT) | nadK → | NAD kinase |
| RA | 2,773,721 | T→C | F135S (TTT→TCT) | yfjW → | CP4‑57 prophage; uncharacterized protein YfjW |
| RA | 2,779,727 | A→G | N1000N (AAT→AAC) | ypjA ← | adhesin‑like autotransporter YpjA |
| RA | 2,782,393 | (C)5→4 | coding (334/4581 nt) | ypjA ← | adhesin‑like autotransporter YpjA |
| RA | 2,782,394 | G→A | D111D (GAC→GAT) | ypjA ← | adhesin‑like autotransporter YpjA |
| RA | 2,827,666 | T→A | V102E (GTG→GAG) | srlB → | sorbitol‑specific PTS enzyme IIA component |
| RA | 2,832,654 | T→A | V60E (GTG→GAG) | norV → | anaerobic nitric oxide reductase flavorubredoxin |
| RA | 2,844,396 | G→A | V119V (GTC→GTT) | hycF ← | formate hydrogenlyase subunit HycF |
| RA | 2,860,308 | T→C | F183F (TTT→TTC) | pphB → | phosphoprotein phosphatase 2 |
| RA | 2,894,763 | T→A | L190I (TTA→ATA) | ygcP → | putative anti‑terminator regulatory protein |
| RA | 2,900,805 | T→A | F72I (TTT→ATT) | yqcE → | putative transport protein YqcE |
| RA | 2,906,427 | A→G | I239M (ATA→ATG) | ygcG → | protein YgcG |
| RA | 2,907,489 | C→T | M151I (ATG→ATA) | eno ← | enolase |
| RA | 2,932,902 | C→A | D38Y (GAT→TAT) | fucO ← | L‑1,2‑propanediol oxidoreductase |
| RA | 2,937,860 | C→T | A131A (GCC→GCT) | fucK → | L‑fuculokinase |
| RA | 2,958,495 | A→G | Y130Y (TAT→TAC) | ptrA ← | protease 3 |
| RA | 2,960,676 | C→T | E585K (GAA→AAA) | recC ← | exodeoxyribonuclease V subunit RecC |
| RA | 2,975,617 | A→G | I133T (ATT→ACT) | aas ← | acyltransferase |
| RA | 3,008,343 | T→C | V278V (GTT→GTC) | ygeX → | 2,3‑diaminopropionate ammonia‑lyase |
| RA | 3,016,863 | C→A | I268I (ATC→ATA) | ygfK → | putative oxidoreductase, Fe‑S subunit |
| RA | 3,017,496 | A→T | E479D (GAA→GAT) | ygfK → | putative oxidoreductase, Fe‑S subunit |
| RA | 3,046,867 | G→A | G725G (GGC→GGT) | gcvP ← | glycine decarboxylase |
| RA | 3,073,292 | C→A | V134F (GTT→TTT) | epd ← | D‑erythrose‑4‑phosphate dehydrogenase |
| RA | 3,077,659 | C→T | A401T (GCA→ACA) | cmtA ← | mannitol‑specific PTS enzyme IICB component CmtA |
| RA | 3,082,793 | G→A | intergenic (+122/+84) | loiP → / ← speB | metalloprotease LoiP/agmatinase |
| RA | 3,088,585 | C→T | A101V (GCT→GTT) | galP → | galactose:H(+) symporter |
| RA | 3,094,484 | G→A | L199L (CTC→CTT) | yggR ← | Type II/IV secretion system family protein |
| RA | 3,113,514 | +A | intergenic (‑37/+29) | yghG ← / ← pppA | lipoprotein YghG/prepilin peptidase |
| RA | 3,121,875 | T→C | N644S (AAC→AGC) | glcB ← | malate synthase G |
| RA | 3,142,898 | G→A | A31V (GCA→GTA) | hybC ← | hydrogenase 2 large subunit |
| RA | 3,149,148 | T→C | K108K (AAA→AAG) | yqhA ← | uncharacterized protein YqhA |
| RA | 3,152,036 | C→T | intergenic (‑52/‑200) | exbB ← / → metC | Ton complex subunit ExbB/cystathionine beta‑lyase/L‑cysteine desulfhydrase |
| RA | 3,152,994 | C→T | S253S (AGC→AGT) | metC → | cystathionine beta‑lyase/L‑cysteine desulfhydrase |
| RA | 3,187,691 | G→A | pseudogene (260/2434 nt) | yqiG → | putative outer membrane usher protein YqiG |
| RA | 3,201,749 | G→A | L181L (CTG→CTA) | ygiM → | putative signal transduction protein (SH3 domain) |
| RA | 3,223,904 | C→T | Y424Y (TAC→TAT) | ebgA → | evolved beta‑D‑galactosidase subunit alpha |
| RA | 3,225,566 | C→T | S978S (AGC→AGT) | ebgA → | evolved beta‑D‑galactosidase subunit alpha |
| RA | 3,290,288 | A→G | Y492C (TAT→TGT) | yraJ → | putative fimbrial usher protein YraJ |
| RA | 3,332,210 | C→A | V176L (GTG→TTG) | yhbE ← | inner membrane protein YhbE |
| RA | 3,360,724 | T→C | intergenic (+108/‑452) | gltD → / → gltF | glutamate synthase subunit GltD/periplasmic protein GltF |
| RA | 3,368,665 | T→G | L280R (CTG→CGG) | yhcG → | DUF1016 domain‑containing protein YhcG |
| RA | 3,374,775 | C→T | intergenic (‑286/‑94) | nanR ← / → dcuD | DNA‑binding transcriptional dual regulator NanR/putative transporter DcuD |
| RA | 3,374,944 | G→A | V26M (GTG→ATG) | dcuD → | putative transporter DcuD |
| RA | 3,397,596 | A→T | F67Y (TTT→TAT) | rng ← | RNase G |
| RA | 3,403,864 | C→T | A127A (GCC→GCT) | yhdH → | acrylyl‑CoA reductase |
| RA | 3,432,299 | +C | coding (166/474 nt) | smg ← | DUF494 domain‑containing protein Smg |
| RA | 3,435,342 | G→A | E46K (GAG→AAG) | rsmB → | 16S rRNA m(5)C967 methyltransferase |
| RA | 3,447,485 | A→G | F95L (TTC→CTC) | rplX ← | 50S ribosomal subunit protein L24 |
| RA | 3,454,025 | T→A | S458S (TCA→TCT) | gspA ← | Type II secretion system protein GspA |
| RA | 3,471,692 | G→T | A608E (GCG→GAG) | fusA ← | elongation factor G |
| RA | 3,489,824 | T→A | A119A (GCA→GCT) | argD ← | N‑acetylornithine aminotransferase/N‑succinyldiaminopimelate aminotransferase |
| RA | 3,497,005 | G→A | M1M (ATG→ATA) † | nirC → | nitrite transporter NirC |
| RA | 3,499,007 | C→T | L394L (CTG→TTG) | cysG → | siroheme synthase |
| RA | 3,543,611 | C→T | L149F (CTT→TTT) | rpnA → | recombination‑promoting nuclease RpnA |
| RA | 3,547,765 | G→T | E403* (GAG→TAG) | gntT → | high‑affinity gluconate transporter |
| RA | 3,549,669 | C→T | P134P (CCG→CCA) | malQ ← | 4‑alpha‑glucanotransferase |
| RA | 3,589,355 | C→T | V225M (GTG→ATG) | ugpE ← | sn‑glycerol 3‑phosphate ABC transporter membrane subunit UgpE |
| RA | 3,607,423 | G→T | A325S (GCC→TCC) | zntA → | Zn(2(+))/Cd(2(+))/Pb(2(+)) exporting P‑type ATPase |
| RA | 3,608,490 | C→T | A680A (GCC→GCT) | zntA → | Zn(2(+))/Cd(2(+))/Pb(2(+)) exporting P‑type ATPase |
| RA | 3,611,739 | T→A | intergenic (‑6/‑126) | yhhS ← / → yhhT | putative transporter YhhS/putative transporter YhhT |
| RA | 3,633,702 | C→T | pseudogene (757/1607 nt) | yhiL ← | putative uncharacterized protein YhiL |
| RA | 3,634,444 | G→A | pseudogene (15/1607 nt) | yhiL ← | putative uncharacterized protein YhiL |
| RA | 3,649,690 | A→T | A252A (GCA→GCT) | arsB → | arsenite/antimonite:H(+) antiporter |
| RA | 3,657,601 | G→A | intergenic (+34/+385) | hdeD → / ← arrS | acid‑resistance membrane protein/small regulatory RNA ArrS |
| RA | 3,665,991 | A→G | intergenic (‑181/+189) | gadX ← / ← gadA | DNA‑binding transcriptional dual regulator GadX/glutamate decarboxylase A |
| RA | 3,672,739 | Δ1 bp | coding (326/900 nt) | yhjC → | putative DNA‑binding transcriptional regulator YhjC |
| RA | 3,704,055 | G→A | A236V (GCT→GTT) | dppC ← | dipeptide ABC transporter membrane subunit DppC |
| RA | 3,734,789 | T→A | L357Q (CTG→CAG) | xylH → | xylose ABC transporter membrane subunit |
| RA | 3,740,658 | C→A | I318I (ATC→ATA) | avtA → | valine‑‑pyruvate aminotransferase |
| RA | 3,769,837 | (T)7→8 | intergenic (+157/+406) | yibV → / ← yibH | PF15596 family protein YibV/inner membrane protein YibH |
| RA | 3,807,326 | T→C | D258G (GAT→GGT) | waaQ ← | lipopolysaccharide core heptosyltransferase 3 |
| RA | 3,820,029 | A→G | V381A (GTG→GCG) | ligB ← | DNA ligase B |
| RA | 3,834,019 | C→T | V173V (GTG→GTA) | yicI ← | alpha‑D‑xyloside xylohydrolase |
| RA | 3,864,243 | C→T | I115I (ATC→ATT) | yidP → | putative DNA‑binding transcriptional regulator YidP |
| RA | 3,904,521 | C→T | A359A (GCG→GCA) | bglF ← | beta‑glucoside specific PTS enzyme II/BglG kinase/BglG phosphatase |
| RA | 3,921,309 | A→T | I248N (ATC→AAC) | atpB ← | ATP synthase Fo complex subunit a |
| RA | 3,924,204 | C→T | R477H (CGT→CAT) | mnmG ← | 5‑carboxymethylaminomethyluridine‑tRNA synthase subunit MnmG |
| RA | 3,969,234 | G→A | M68I (ATG→ATA) | wzzE → | enterobacterial common antigen polysaccharide co‑polymerase |
| RA | 3,991,035 | C→T | intergenic (‑269/‑118) | hemC ← / → cyaA | hydroxymethylbilane synthase/adenylate cyclase |
| RA | 4,020,179 | C→T | R186C (CGT→TGT) noncoding (202/252 nt) |
ubiJ → esrE → |
ubiquinone biosynthesis accessory factor UbiJ small RNA EsrE |
| RA | 4,033,383 | T→A | L80Q (CTG→CAG) | trkH → | K(+) transporter TrkH |
| RA | 4,041,630 | A→G | W124R (TGG→CGG) | mobA ← | molybdenum cofactor guanylyltransferase |
| RA | 4,053,227 | C→T | H395Y (CAC→TAC) | hemN → | coproporphyrinogen III dehydrogenase |
| RA | 4,053,455 | A→G | intergenic (+37/+192) | hemN → / ← yshB | coproporphyrinogen III dehydrogenase/uncharacterized protein YshB |
| RA | 4,081,536 | A→C | F109V (TTC→GTC) | fdoI ← | formate dehydrogenase O subunit gamma |
| RA | 4,093,668 | (T)5→4 | coding (605/825 nt) | rhaD ← | rhamnulose‑1‑phosphate aldolase |
| RA | 4,104,429 | C→T | A183T (GCC→ACC) | cpxA ← | sensory histidine kinase CpxA |
| RA | 4,139,431 | A→G | L93P (CTG→CCG) | fsaB ← | fructose‑6‑phosphate aldolase 2 |
| RA | 4,144,522 | G→A | M176I (ATG→ATA) | pflD → | putative formate acetyltransferase 2 |
| RA | 4,156,086 | G→A | S25N (AGC→AAC) | argB → | acetylglutamate kinase |
| RA | 4,177,755 | C→T | P5S (CCT→TCT) | nusG → | transcription termination factor NusG |
| RA | 4,182,820 | C→T | H526Y (CAC→TAC) | rpoB → | RNA polymerase subunit beta |
| RA | 4,183,748 | A→G | E835G (GAA→GGA) | rpoB → | RNA polymerase subunit beta |
| RA | 4,184,140 | A→G | I966V (ATC→GTC) | rpoB → | RNA polymerase subunit beta |
| RA | 4,224,682 | T→G | D285E (GAT→GAG) | metH → | cobalamin‑dependent methionine synthase |
| RA | 4,276,458 | A→G | M330V (ATG→GTG) | pdeC → | c‑di‑GMP phosphodiesterase PdeC |
| RA | 4,293,531 | G→A | V123V (GTG→GTA) | nrfF → | putative formate‑dependent nitrite reductase complex subunit NrfF |
| RA | 4,316,957 | Δ1 bp | coding (262/1137 nt) | phnM ← | RPnTP hydrolase |
| RA | 4,319,653 | G→A | F337F (TTC→TTT) | phnI ← | carbon‑phosphorus lyase core complex subunit PhnI |
| RA | 4,323,424 | G→T | T310N (ACC→AAC) | phnD ← | phosphonate ABC transporter periplasmic binding protein |
| RA | 4,324,004 | G→A | P117S (CCG→TCG) | phnD ← | phosphonate ABC transporter periplasmic binding protein |
| RA | 4,333,287 | T→C | N222D (AAC→GAC) | basR ← | DNA‑binding transcriptional dual regulator BasR |
| RA | 4,333,655 | A→T | L99Q (CTG→CAG) | basR ← | DNA‑binding transcriptional dual regulator BasR |
| RA | 4,391,914 | T→C | I104T (ATT→ACT) | orn → | oligoribonuclease |
| RA | 4,410,422 | T→C | V97A (GTT→GCT) | yjfI → | conserved protein YjfI |
| RA | 4,418,094 | G→A | I120I (ATC→ATT) | ulaR ← | DNA‑binding transcriptional repressor UlaR |
| RA | 4,460,132 | T→C | H78R (CAT→CGT) | nrdG ← | anaerobic ribonucleoside‑triphosphate reductase activating protein |
| RA | 4,479,585 | C→T | intergenic (‑48/‑145) | yjgM ← / → yjgN | putative acetyltransferase YjgM/conserved inner membrane protein YjgN |
| RA | 4,480,873 | G→A | G382S (GGC→AGC) | yjgN → | conserved inner membrane protein YjgN |
| RA | 4,504,097 | C→T | R14W (CGG→TGG) | yjhB → | putative sialic acid transporter |
| RA | 4,505,423 | G→A | C46Y (TGT→TAT) | yjhC → | KpLE2 phage‑like element; putative oxidoreductase YjhC |
| RA | 4,538,483 | T→A | K95* (AAA→TAA) | nanM ← | N‑acetylneuraminate mutarotase |
| RA | 4,545,445 | T→C | M117T (ATG→ACG) | fimD → | type I fimbriae usher protein |
| RA | 4,551,712 | G→A | G26D (GGC→GAC) | uxuA → | D‑mannonate dehydratase |
| RA | 4,559,565 | T→A | I146F (ATC→TTC) | yjiG ← | Gate family protein YjiG |
| RA | 4,559,878 | C→T | A41A (GCG→GCA) | yjiG ← | Gate family protein YjiG |
| RA | 4,579,647 | C→A | G65V (GGC→GTC) | symE ← | toxic protein SymE |
| RA | 4,590,284 | G→A | F332F (TTC→TTT) | btsT ← | pyruvate:H(+) symporter |
| RA | 4,603,273 | C→T | intergenic (‑415/‑204) | yjjP ← / → yjjQ | putative succinate exporter YjjP/DNA‑binding transcriptional repressor YjjQ |
| RA | 4,635,821 | G→A | G101S (GGC→AGC) | creA → | PF05981 family protein CreA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423723–3424234 | 3424585–3424238 | 5–863 | 5 [4] | [4] 5 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 3751936 | 3752011 | 76 | 5 [4] | [4] 6 | [yiaU] | [yiaU] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 6 (0.190) | 7 (0.270) | 7/128 | 1.9 | 58.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 5 (0.200) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 6 (0.190) | 15 (0.590) | 14/128 | 0.8 | 75.4% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 5 (0.200) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||