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 | 8,964 | A→G | T243A (ACC→GCC) | talB → | transaldolase B |
| RA | 13,436 | T→C | V425A (GTG→GCG) | dnaK → | chaperone protein DnaK |
| RA | 40,989 | C→T | G315S (GGC→AGC) | caiT ← | L‑carnitine:gamma‑butyrobetaine antiporter |
| RA | 53,721 | A→G | F328L (TTC→CTC) | surA ← | peptidyl‑prolyl cis‑trans isomerase SurA |
| RA | 59,658 | A→G | intergenic (+379/+29) | yabQ → / ← rluA | protein YabQ/23S rRNA pseudouridine(746) and tRNA pseudouridine(32) synthase |
| RA | 77,723 | A→G | T35A (ACA→GCA) | setA → | sugar exporter SetA |
| RA | 101,339 | T→C | V192A (GTC→GCC) | murC → | UDP‑N‑acetylmuramate‑‑L‑alanine ligase |
| RA | 156,750 | A→G | V45A (GTT→GCT) | yadN ← | putative fimbrial protein YadN |
| RA | 163,992 | G→A | A630T (GCG→ACG) | hrpB → | putative ATP‑dependent RNA helicase HrpB |
| RA | 189,571 | A→G | intergenic (‑65/‑141) | map ← / → tff | methionine aminopeptidase/putative small RNA T44 |
| RA | 200,287 | A→G | Y787C (TAC→TGC) | bamA → | outer membrane protein assembly factor BamA |
| RA | 237,222 | A→G | intergenic (+215/‑113) | aspV → / → yafT | tRNA‑Asp/lipoprotein YafT |
| RA | 249,530 | (A)5→4 | pseudogene (541/1713 nt) | lfhA ← | flagellar system protein, promoterless fragment |
| RA | 250,303 | A→G | pseudogene (232/756 nt) | lafU → | flagellar system protein, promoterless fragment |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 284,102 | T→C | V301A (GTG→GCG) | yagF → | CP4‑6 prophage; D‑xylonate dehydratase |
| RA | 291,942 | A→G | K148R (AAG→AGG) | yagJ → | CP4‑6 prophage; protein YagJ |
| RA | 300,444 | T→C | D164G (GAC→GGC) | paoC ← | aldehyde dehydrogenase: molybdenum cofactor‑binding subunit |
| RA | 351,375 | A→G | Y54C (TAC→TGC) | prpD → | 2‑methylcitrate dehydratase |
| RA | 364,333 | G→A | A658V (GCG→GTG) | lacZ ← | beta‑galactosidase |
| RA | 374,326 | G→A | K153K (AAG→AAA) | mhpE → | 4‑hydroxy‑2‑oxovalerate aldolase |
| RA | 393,709 | A→G | pseudogene (740/1449 nt) | yaiT → | putative autotransporter YaiT |
| RA | 395,726 | A→G | F188L (TTC→CTC) | ampH ← | peptidoglycan DD‑carboxypeptidase/peptidoglycan DD‑endopeptidase |
| RA | 423,327 | T→G | C270W (TGT→TGG) | malZ → | maltodextrin glucosidase |
| RA | 445,425 | A→G | R414R (CGT→CGC) | yajR ← | putative major facilitator superfamily transport protein YajR |
| RA | 458,411 | C→T | P329L (CCG→CTG) | clpX → | ATP‑dependent Clp protease ATP‑binding subunit ClpX |
| RA | 461,030 | C→T | P715S (CCG→TCG) | lon → | Lon protease |
| RA | 473,618 | A→G | H218R (CAC→CGC) | amtB → | ammonia/ammonium transporter |
| RA | 513,935 | (A)7→6 | intergenic (+67/‑58) | ybaT → / → cueR | putative transporter YbaT/DNA‑binding transcriptional dual regulator CueR |
| RA | 525,807 | C→T | T849T (ACC→ACT) | rhsD → | protein RhsD |
| RA | 527,577 | T→C | intergenic (+36/‑4) | rhsD → / → ybbC | protein RhsD/PF15631 family protein YbbC |
| RA | 538,138 | A→G | N169S (AAC→AGC) | ybbW → | putative allantoin transporter |
| RA | 566,691 | Δ1 bp | pseudogene (8/93 nt) | renD → | DLP12 prophage; protein RenD |
| RA | 584,251 | T→C | Y191H (TAT→CAT) | appY → | DNA‑binding transcriptional activator AppY |
| RA | 584,320 | A→G | S214G (AGT→GGT) | appY → | DNA‑binding transcriptional activator AppY |
| RA | 588,641 | A→G | Y772H (TAT→CAT) | nfrA ← | bacteriophage N4 receptor, outer membrane protein |
| RA | 588,928 | A→G | L676P (CTT→CCT) | nfrA ← | bacteriophage N4 receptor, outer membrane protein |
| RA | 700,329 | A→G | intergenic (‑3/+45) | umpH ← / ← nagC | UMP phosphatase/DNA‑binding transcriptional dual regulator NagC |
| RA | 715,242 | (T)6→5 | intergenic (+44/‑170) | pgm → / → ybfP | phosphoglucomutase/lipoprotein YbfP |
| RA | 723,528 | (T)8→7 | coding (887/2685 nt) | kdpD ← | sensory histidine kinase KdpD |
| RA | 731,616 | C→T | H678H (CAC→CAT) | rhsC → | rhs element protein RhsC |
| RA | 786,717 | C→T | intergenic (+32/+126) | aroG → / ← gpmA | 3‑deoxy‑7‑phosphoheptulonate synthase, Phe‑sensitive/2,3‑bisphosphoglycerate‑dependent phosphoglycerate mutase |
| RA | 790,895 | T→C | L45L (TTA→TTG) | galT ← | galactose‑1‑phosphate uridylyltransferase |
| RA | 803,566 | C→T | H22Y (CAT→TAT) | ybhJ → | putative hydratase YbhJ |
| RA | 821,842 | (C)5→4 | coding (657/957 nt) | ybhN ← | conserved inner membrane protein YbhN |
| RA | 824,458 | T→C | T14A (ACC→GCC) | ybhP ← | endonuclease/exonuclease/phosphatase domain‑containing protein YbhP |
| RA | 824,547 | C→T | intergenic (‑50/‑83) | ybhP ← / → ybhQ | endonuclease/exonuclease/phosphatase domain‑containing protein YbhP/putative inner membrane protein |
| RA | 833,631 | A→G | S188G (AGT→GGT) | dinG → | ATP‑dependent DNA helicase DinG |
| RA | 840,048 | A→G | V495A (GTG→GCG) | fiu ← | putative iron siderophore outer membrane transporter |
| RA | 842,639 | C→T | A103V (GCG→GTG) | rlmF → | 23S rRNA m(6)A1618 methyltransferase |
| RA | 847,173 | C→T | intergenic (‑54/+85) | glnP ← / ← glnH | L‑glutamine ABC transporter membrane subunit/L‑glutamine ABC transporter periplasmic binding protein |
| RA | 868,422 | (C)8→9 | coding (903/1872 nt) | gsiA → | glutathione ABC transporter ATP binding subunit GsiA |
| RA | 878,179 | A→G | intergenic (‑144/‑69) | rimO ← / → bssR | ribosomal protein S12 methylthiotransferase RimO/regulator of biofilm formation |
| RA | 879,527 | A→G | S262S (TCA→TCG) | yliI → | aldose sugar dehydrogenase YliI |
| RA | 883,336 | T→C | D18G (GAC→GGC) | ybjG ← | undecaprenyl pyrophosphate phosphatase |
| RA | 884,549 | T→C | W293R (TGG→CGG) | mdfA → | multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 890,085 | A→G | intergenic (‑266/‑4) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 913,656 | A→G | R53R (CGT→CGC) | hcp ← | protein S‑nitrosylase |
| RA | 932,340 | (A)8→7 | intergenic (‑290/‑255) | trxB ← / → lrp | thioredoxin reductase/DNA‑binding transcriptional dual regulator Lrp |
| RA | 933,596 | A→G | T125A (ACC→GCC) | ftsK → | cell division DNA translocase FtsK |
| RA | 941,535 | T→C | C193R (TGC→CGC) | dmsA → | dimethyl sulfoxide reductase subunit A |
| RA | 951,214 | C→T | intergenic (‑134/+58) | pflA ← / ← pflB | pyruvate formate‑lyase activating enzyme/pyruvate formate‑lyase |
| RA | 952,388 | A→G | A389A (GCT→GCC) | pflB ← | pyruvate formate‑lyase |
| RA | 964,208 | A→G | intergenic (+96/‑112) | ihfB → / → ycaI | integration host factor subunit beta/conserved inner membrane protein YcaI |
| RA | 1,004,160 | (G)7→8 | coding (214/711 nt) | ycbF → | putative fimbrial chaperone YcbF |
| RA | 1,007,316 | T→C | T95T (ACA→ACG) | ycbX ← | 6‑N‑hydroxylaminopurine resistance protein |
| RA | 1,010,898 | C→T | A312V (GCC→GTC) | uup → | ATP‑binding protein with possible role in replication |
| RA | 1,017,078 | A→G | F408L (TTC→CTC) | ycbZ ← | putative ATP‑dependent protease YcbZ |
| RA | 1,020,576 | A→G | V115A (GTG→GCG) | sulA ← | cell division inhibitor SulA |
| RA | 1,048,161 | (G)5→6 | coding (531/747 nt) | gfcC ← | capsule biosynthesis GfcC family protein |
| RA | 1,055,339 | A→G | S280S (AGT→AGC) | torS ← | sensory histidine kinase TorS |
| RA | 1,066,854 | (G)5→6 | intergenic (+28/+10) | agp → / ← yccJ | glucose‑1‑phosphatase/PF13993 family protein YccJ |
| RA | 1,076,112 | C→T | C924Y (TGC→TAC) | putA ← | fused DNA‑binding transcriptional repressor/proline dehydrogenase/1‑pyrroline‑5‑carboxylate dehydrogenase PutA |
| RA | 1,076,565 | A→G | V773A (GTG→GCG) | putA ← | fused DNA‑binding transcriptional repressor/proline dehydrogenase/1‑pyrroline‑5‑carboxylate dehydrogenase PutA |
| RA | 1,092,272 | (T)5→4 | coding (18/2424 nt) | pgaA ← | partially deacetylated poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine outer membrane porin |
| RA | 1,097,580 | (G)7→8 | noncoding (73/88 nt) | serX ← | tRNA‑Ser |
| RA | 1,099,236 | A→G | T120A (ACT→GCT) | ycdX → | zinc‑binding phosphatase |
| RA | 1,133,166 | T→C | V198A (GTC→GCC) | flgE → | flagellar hook protein FlgE |
| RA | 1,140,058 | A→G | Y9C (TAC→TGC) | flgL → | flagellar hook‑filament junction protein 2 |
| RA | 1,143,140 | T→C | T410A (ACT→GCT) | rne ← | ribonuclease E |
| RA | 1,172,696 | A→G | R423R (CGT→CGC) | mfd ← | transcription‑repair coupling factor |
| RA | 1,182,367 | A→G | W155R (TGG→CGG) | potD ← | spermidine preferential ABC transporter periplasmic binding protein |
| RA | 1,184,982 | T→C | T205A (ACT→GCT) | potA ← | spermidine preferential ABC transporter ATP binding subunit |
| RA | 1,194,643 | T→C | K103K (AAA→AAG) | rluE ← | 23S rRNA pseudouridine(2457) synthase |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,277 | C→T | N385N (AAC→AAT) | icd → | isocitrate dehydrogenase |
| RA | 1,212,088 | (C)8→9 | intergenic (‑85/+172) | iraM ← / ← ymgK | anti‑adaptor protein IraM, inhibitor of sigma(S) proteolysis/protein YmgK |
| RA | 1,220,971 | G→A | pseudogene (1371/2648 nt) | ycgH → | putative transporter component, N‑terminal fragment |
| RA | 1,266,530 | T→C | V146A (GTC→GCC) | prmC → | protein‑(glutamine‑N(5)) methyltransferase |
| RA | 1,272,642 | C→T | P46S (CCG→TCG) | chaC → | glutathione‑specific gamma‑glutamylcyclotransferase |
| RA | 1,276,107 | A→G | R504R (CGT→CGC) | narX ← | sensory histidine kinase NarX |
| RA | 1,297,154 | A→G | V323A (GTG→GCG) | adhE ← | aldehyde‑alcohol dehydrogenase |
| RA | 1,303,697 | G→A | A267T (GCA→ACA) | oppB → | murein tripeptide ABC transporter/oligopeptide ABC transporter inner membrane subunit OppB |
| RA | 1,304,226 | T→C | G131G (GGT→GGC) | oppC → | murein tripeptide ABC transporter/oligopeptide ABC transporter inner membrane subunit OppC |
| RA | 1,351,196 | (G)7→6 | intergenic (‑157/+211) | fabI ← / ← ycjD | enoyl‑[acyl‑carrier‑protein] reductase/DUF559 domain‑containing protein YcjD |
| RA | 1,361,393 | C→T | R92C (CGT→TGT) | puuD → | gamma‑glutamyl‑gamma‑aminobutyrate hydrolase |
| RA | 1,377,819 | T→C | Y330H (TAC→CAC) | ycjS → | putative oxidoreductase YcjS |
| RA | 1,438,207 | A→G | Y860H (TAT→CAT) | ydbK ← | putative pyruvate‑flavodoxin oxidoreductase |
| RA | 1,438,306 | A→G | Y827H (TAT→CAT) | ydbK ← | putative pyruvate‑flavodoxin oxidoreductase |
| RA | 1,455,822 | G→A | G220D (GGT→GAT) | paaC → | phenylacetyl‑CoA 1,2‑epoxidase, structural subunit |
| RA | 1,459,273 | A→G | I74V (ATC→GTC) | paaH → | 3‑hydroxyadipyl‑CoA dehydrogenase |
| RA | 1,462,242 | T→C | Y40H (TAT→CAT) | paaK → | phenylacetate‑CoA ligase |
| RA | 1,479,687 | (G)6→5 | coding (550/1758 nt) | ynbC → | hydrolase/methyltransferase domain‑containing protein YnbC |
| RA | 1,491,397 | A→G | T166A (ACA→GCA) | cybB → | cytochrome b561 |
| RA | 1,496,361 | G→A | A358A (GCG→GCA) | ydcJ → | DUF1338 domain‑containing protein YdcJ |
| RA | 1,502,388 | (T)7→8 | intergenic (+233/‑69) | tehB → / → ydcL | tellurite methyltransferase/DUF3313 domain‑containing lipoprotein YdcL |
| RA | 1,518,660 | T→C | T63A (ACG→GCG) | mnaT ← | L‑amino acid N‑acyltransferase |
| RA | 1,519,178 | A→G | D51G (GAC→GGC) | curA → | NADPH‑dependent curcumin/dihydrocurcumin reductase |
| RA | 1,541,351 | C→T | E414K (GAA→AAA) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,552,034 | C→T | intergenic (+43/+364) | fdnI → / ← yddM | formate dehydrogenase N subunit gamma/putative DNA‑binding transcriptional regulator YddM |
| RA | 1,560,788 | C→T | A48T (GCT→ACT) | ddpB ← | putative D,D‑dipeptide ABC transporter membrane subunit DdpB |
| RA | 1,584,934 | (T)7→8 | coding (1553/2280 nt) | ydeP ← | putative oxidoreductase YdeP |
| RA | 1,594,132 | (C)8→7 | 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 | 1,595,669 | A→G | pseudogene (2418/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,597,873 | T→C | pseudogene (214/5422 nt) | yneO ← | AIDA‑I family autotransporter YneO |
| RA | 1,606,758 | T→C | V220A (GTA→GCA) | lsrF → | 3‑hydroxy‑2,4‑pentadione 5‑phosphate thiolase |
| RA | 1,622,793 | A→G | intergenic (+52/+24) | mgtS → / ← mgrR | small protein MgtS/small regulatory RNA MgrR |
| RA | 1,635,527 | A→G | G107G (GGT→GGC) | ydfN ← | Qin prophage; putative side tail fiber assembly protein |
| RA | 1,644,058 | A→G | S83P (TCC→CCC) | ydfU ← | Qin prophage; protein YdfU |
| RA | 1,653,981 | T→C | E387E (GAA→GAG) | rspA ← | mandelate racemase/muconate lactonizing enzyme family protein RspA |
| RA | 1,664,627 | G→A | G41D (GGC→GAC) | dmsD → | redox enzyme maturation protein DmsD |
| RA | 1,680,569 | A→G | N338S (AAC→AGC) | ydgI → | putative arginine:ornithine antiporter |
| RA | 1,685,542 | (C)6→5 | coding (1047/1404 nt) | fumC ← | fumarase C |
| RA | 1,720,731 | T→C | T32A (ACC→GCC) | slyA ← | DNA‑binding transcriptional dual regulator SlyA |
| RA | 1,735,088 | A→G | G218G (GGA→GGG) | mepH → | peptidoglycan DD‑endopeptidase MepH |
| RA | 1,735,184 | T→C | S250S (AGT→AGC) | mepH → | peptidoglycan DD‑endopeptidase MepH |
| RA | 1,765,953 | T→C | E911E (GAA→GAG) | ydiJ ← | putative FAD‑linked oxidoreductase |
| RA | 1,769,258 | G→A | R62H (CGC→CAC) | ydiK → | putative transporter YdiK |
| RA | 1,769,478 | (G)7→8 | coding (405/1113 nt) | ydiK → | putative transporter YdiK |
| RA | 1,785,140 | A→G | V658A (GTT→GCT) | ppsA ← | phosphoenolpyruvate synthetase |
| RA | 1,787,826 | Δ1 bp | coding (382/834 nt) | ppsR → | posphoenolpyruvate synthetase regulatory protein |
| RA | 1,792,029 | T→C | intergenic (‑9/+238) | ydiV ← / ← nlpC | anti‑FlhDC factor/NlpC/P60 family lipoprotein NlpC |
| RA | 1,806,684 | T→C | R105R (CGT→CGC) | pfkB → | 6‑phosphofructokinase II |
| RA | 1,829,570 | C→T | R55R (CGG→CGA) | astD ← | aldehyde dehydrogenase |
| RA | 1,835,101 | C→T | G98G (GGC→GGT) | ydjZ → | DedA family protein YdjZ |
| RA | 1,863,508 | T→C | R246R (CGT→CGC) | gapA → | glyceraldehyde‑3‑phosphate dehydrogenase A |
| RA | 1,873,384 | A→G | K448K (AAA→AAG) | dgcJ → | putative diguanylate cyclase DgcJ |
| RA | 1,874,785 | T→C | V145A (GTG→GCG) P264P (CCA→CCG) |
yeaL → nimR ← |
conserved inner membrane protein YeaL DNA‑binding transcriptional repressor NimR |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,900,630 | A→C | V319G (GTC→GGC) | yoaE ← | putative inner membrane protein |
| RA | 1,907,825 | T→C | intergenic (‑234/+436) | yobF ← / ← yebO | DUF2527 domain‑containing protein YobF/uncharacterized protein YebO |
| RA | 1,927,241 | (C)6→7 | coding (1599/2061 nt) | ptrB ← | oligopeptidase B |
| RA | 1,961,461 | T→C | V467A (GTA→GCA) | argS → | arginine‑‑tRNA ligase |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 1,982,680 | G→A | G287G (GGC→GGT) | araH ← | arabinose ABC transporter membrane subunit |
| RA | 2,006,068 | A→G | N119S (AAC→AGC) | fliT → | flagellar biosynthesis protein FliT |
| RA | 2,009,080 | T→C | S268S (AGT→AGC) | yedE → | putative selenium transporter YedE |
| RA | 2,017,228 | T→C | G225G (GGT→GGC) | fliI → | flagellum‑specific ATP synthase FliI |
| RA | 2,018,260 | (A)8→9 | coding (315/444 nt) | fliJ → | flagellar biosynthesis protein FliJ |
| RA | 2,030,935 | A→C | R461R (CGT→CGG) | dcm ← | DNA‑cytosine methyltransferase |
| RA | 2,041,588 | G→A | G72S (GGC→AGC) | zinT → | metal‑binding protein ZinT |
| RA | 2,050,074 | A→G | S1713G (AGC→GGC) | yeeJ → | inverse autotransporter adhesin |
| RA | 2,060,312 | A→G | I201I (ATT→ATC) | cbl ← | DNA‑binding transcriptional activator Cbl |
| RA | 2,067,300 | C→T | G8R (GGA→AGA) | insH‑6 ← | CP4‑44 prophage; IS5 transposase and trans‑activator |
| RA | 2,074,419 | C→T | P961S (CCT→TCT) | flu → | CP4‑44 prophage; self recognizing antigen 43 (Ag43) autotransporter |
| RA | 2,101,186 | G→A | T28I (ACC→ATC) | gnd ← | 6‑phosphogluconate dehydrogenase, decarboxylating |
| RA | 2,136,843 | A→G | V134A (GTC→GCC) | wza ← | outer membrane polysaccharide export protein Wza |
| RA | 2,158,591 | G→A | R69H (CGC→CAC) | mdtC → | multidrug efflux pump RND permease subunit MdtC |
| RA | 2,168,791 | T→C | L27P (CTG→CCG) | yegS → | lipid kinase |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,183,713 | T→C | intergenic (‑62/+3) | yegX ← / ← thiD | putative hydrolase/bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase |
| RA | 2,188,888 | T→C | N675D (AAT→GAT) | yehB ← | putative fimbrial usher protein YehB |
| RA | 2,188,957 | (C)5→4 | coding (1954/2481 nt) | yehB ← | putative fimbrial usher protein YehB |
| RA | 2,198,192 | T→C | intergenic (+894/‑2087) | yehF → / → yehI | putative protein YehF/DUF4132 domain‑containing protein YehI |
| RA | 2,206,807 | A→G | Q371Q (CAA→CAG) | yehM → | putative YehN |
| RA | 2,208,064 | A→G | D33G (GAC→GGC) | yehP → | VWA domain‑containing protein YehP |
| RA | 2,214,548 | A→G | L33L (TTA→CTA) | btsS ← | high‑affinity pyruvate receptor |
| RA | 2,223,019 | T→C | F279L (TTT→CTT) | dld → | D‑lactate dehydrogenase |
| RA | 2,233,384 | A→G | V169V (GTA→GTG) | sanA → | DUF218 domain‑containing protein SanA |
| RA | 2,234,059 | A→G | E9E (GAA→GAG) | preT → | NAD‑dependent dihydropyrimidine dehydrogenase subunit PreT |
| RA | 2,269,340 | C→T | R163C (CGT→TGT) | lpxT → | Kdo2‑lipid A phosphotransferase |
| RA | 2,329,418 | T→C | Q127R (CAA→CGA) | yfaQ ← | tandem DUF2300 domain‑containing protein YfaQ |
| RA | 2,352,275 | T→C | I34V (ATA→GTA) | glpT ← | sn‑glycerol 3‑phosphate:phosphate antiporter |
| RA | 2,361,874 | T→C | Y113C (TAC→TGC) | yfaX ← | putative DNA‑binding transcriptional regulator YfaX |
| RA | 2,408,713 | G→A | V385I (GTC→ATC) | alaA → | glutamate‑‑pyruvate aminotransferase AlaA |
| RA | 2,412,679 | A→G | *152Q (TAA→CAA) | yfbV ← | UPF0208 membrane protein YfbV |
| RA | 2,446,285 | C→T | A34T (GCA→ACA) | mepA ← | peptidoglycan DD‑endopeptidase/peptidoglycan LD‑endopeptidase |
| RA | 2,446,579 | T→C | T299A (ACC→GCC) | aroC ← | chorismate synthase |
| RA | 2,457,618 | T→C | E514E (GAA→GAG) | fadJ ← | 3‑hydroxyacyl‑CoA dehydrogenase FadJ |
| MC JC | 2,468,599 | Δ4 bp | coding (386‑389/921 nt) | yfdH → | CPS‑53 (KpLE1) prophage; bactoprenol glucosyl transferase |
| RA | 2,516,856 | G→A | A326V (GCG→GTG) | pdeA ← | putative c‑di‑GMP phosphodiesterase PdeA |
| RA | 2,517,911 | C→G | intergenic (‑79/+130) | pdeA ← / ← alaX | putative c‑di‑GMP phosphodiesterase PdeA/tRNA‑Ala |
| RA | 2,527,823 | T→C | V293A (GTG→GCG) | yfeH → | putative solute:Na(+) symporter |
| RA | 2,531,391 | G→A | intergenic (‑158/‑72) | zipA ← / → cysZ | cell division protein ZipA/sulfate:H(+) symporter |
| RA | 2,621,871 | G→A | P225P (CCG→CCA) | purM → | phosphoribosylformylglycinamide cyclo‑ligase |
| RA | 2,622,361 | T→C | L43P (CTT→CCT) | purN → | phosphoribosylglycinamide formyltransferase 1 |
| RA | 2,662,372 | G→A | intergenic (‑241/+211) | iscR ← / ← trmJ | DNA‑binding transcriptional dual regulator IscR/tRNA Cm32/Um32 methyltransferase |
| RA | 2,693,342 | G→A | I734I (ATC→ATT) | purL ← | phosphoribosylformylglycinamide synthetase |
| RA | 2,734,543 | (C)8→9 | coding (492/732 nt) | pgeF ← | polyphenol oxidase YfiH |
| RA | 2,787,637 | T→C | pseudogene (1241/2253 nt) | ygaQ → | putative uncharacterized protein YgaQ |
| RA | 2,803,347 | (T)7→6 | coding (2000/2145 nt) | nrdE → | ribonucleoside‑diphosphate reductase 2 subunit alpha |
| RA | 2,811,134 | A→G | H122R (CAC→CGC) | mprA → | DNA‑binding transcriptional repressor MprA |
| RA | 2,818,463 | A→G | intergenic (‑189/+10) | argY ← / ← argV | tRNA‑Arg/tRNA‑Arg |
| RA | 2,826,424 | T→C | G11G (GGT→GGC) | srlE → | sorbitol‑specific PTS enzyme IIBC1 component |
| RA | 2,828,221 | T→G | V162G (GTC→GGC) | srlD → | sorbitol‑6‑phosphate 2‑dehydrogenase |
| MC JC | 2,857,096 | Δ2,538 bp | coding (4‑2541/2562 nt) | mutS → | DNA mismatch repair protein MutS |
| RA | 2,862,139 | +C | coding (710/909 nt) | ygbJ → | putative L‑threonate dehydrogenase |
| RA | 2,875,776 | G→A | P185L (CCG→CTG) | cysD ← | sulfate adenylyltransferase subunit 2 |
| RA | 2,949,993 | (T)5→6 | coding (752/1332 nt) | argA → | N‑acetylglutamate synthase |
| RA | 2,964,837 | G→A | R107C (CGT→TGT) | thyA ← | thymidylate synthase |
| RA | 2,983,325 | T→C | D267G (GAT→GGT) | kduI ← | 5‑dehydro‑4‑deoxy‑D‑glucuronate isomerase |
| RA | 3,000,657 | G→A | A105T (GCC→ACC) | xdhA → | putative xanthine dehydrogenase molybdenum‑binding subunit XdhA |
| RA | 3,003,479 | (G)6→7 | coding (866/879 nt) | xdhB → | putative xanthine dehydrogenase FAD‑binding subunit XdhB |
| RA | 3,048,383 | A→G | V220A (GTA→GCA) | gcvP ← | glycine decarboxylase |
| RA | 3,068,157 | T→C | intergenic (‑77/+16) | yggE ← / ← argO | uncharacterized protein YggE/L‑arginine exporter |
| RA | 3,099,460 | (T)5→4 | coding (106/1008 nt) | yggM ← | DUF1202 domain‑containing protein YggM |
| RA | 3,125,588 | G→A | A312V (GCC→GTC) | glcE ← | glycolate dehydrogenase, putative FAD‑binding subunit |
| RA | 3,148,203 | T→C | W103R (TGG→CGG) | gpr → | L‑glyceraldehyde 3‑phosphate reductase |
| RA | 3,160,621 | A→G | S176P (TCC→CCC) | ygiQ ← | radical SAM superfamily protein YgiQ |
| RA | 3,195,773 | T→C | E327E (GAA→GAG) | rfaE ← | fused heptose 7‑phosphate kinase/heptose 1‑phosphate adenyltransferase |
| RA | 3,208,795 | T→C | Y258H (TAC→CAC) | ttdT → | L‑tartrate:succinate antiporter |
| RA | 3,240,945 | T→C | A334A (GCT→GCC) | sstT → | serine/threonine:Na(+) symporter |
| RA | 3,245,342 | T→C | L40S (TTA→TCA) | exuT → | hexuronate transporter |
| RA | 3,267,000 | A→G | G22G (GGT→GGC) | tdcA ← | DNA‑binding transcriptional activator TdcA |
| RA | 3,272,178 | T→C | T192A (ACT→GCT) | garR ← | tartronate semialdehyde reductase |
| RA | 3,298,828 | T→C | T7A (ACA→GCA) | yraR ← | putative nucleoside‑diphosphate‑sugar epimerase |
| RA | 3,301,080 | T→C | D66G (GAC→GGC) | yhbT ← | SCP2 domain‑containing protein YhbT |
| RA | 3,306,288 | A→G | F525L (TTT→CTT) | deaD ← | ATP‑dependent RNA helicase DeaD |
| RA | 3,328,195 | (T)5→4 | intergenic (+112/+44) | yhbY → / ← greA | ribosome assembly factor YhbY/transcription elongation factor GreA |
| RA | 3,351,038 | G→A | A663V (GCA→GTA) | arcB ← | sensory histidine kinase ArcB |
| RA | 3,352,281 | A→G | Y249H (TAC→CAC) | arcB ← | sensory histidine kinase ArcB |
| RA | 3,353,504 | G→A | H183Y (CAC→TAC) | yhcC ← | radical SAM family oxidoreductase YhcC |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,358,654 | T→C | R1310R (CGT→CGC) | gltB → | glutamate synthase subunit GltB |
| RA | 3,362,973 | (T)6→7 | coding (167/2382 nt) | yhcD → | putative fimbrial usher protein YhcD |
| RA | 3,367,774 | (C)6→7 | intergenic (+132/‑53) | yhcF → / → yhcG | DUF1120 domain‑containing protein YhcF/DUF1016 domain‑containing protein YhcG |
| RA | 3,388,726 | A→G | V134A (GTT→GCT) | aaeA ← | aromatic carboxylic acid efflux pump membrane fusion protein |
| RA | 3,423,614 | A→G | noncoding (42/76 nt) | thrV ← | tRNA‑Thr |
| RA | 3,462,844 | (G)6→7 | coding (501/588 nt) | gspJ → | Type II secretion system protein GspJ |
| RA | 3,514,258 | T→C | E44E (GAA→GAG) | gph ← | phosphoglycolate phosphatase |
| RA | 3,517,581 | T→C | L302L (TTA→TTG) | aroB ← | 3‑dehydroquinate synthase |
| RA | 3,518,075 | A→G | S138P (TCC→CCC) | aroB ← | 3‑dehydroquinate synthase |
| RA | 3,525,346 | A→G | T826A (ACG→GCG) | mrcA → | peptidoglycan glycosyltransferase/peptidoglycan DD‑transpeptidase MrcA |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,595,404 | A→G | V26A (GTG→GCG) | livM ← | branched chain amino acid/phenylalanine ABC transporter membrane subunit LivM |
| RA | 3,629,222 | A→G | V106A (GTG→GCG) | rbbA ← | ribosome‑associated ATPase |
| RA | 3,643,610 | C→T | G525S (GGC→AGC) | prlC ← | oligopeptidase A |
| RA | 3,681,795 | (G)6→7 | coding (146/1497 nt) | yhjJ ← | peptidase M16 family protein |
| RA | 3,701,625 | A→G | T355A (ACG→GCG) | yhjV → | putative transporter YhjV |
| RA | 3,712,926 | (T)8→7 | coding (9/699 nt) | yhjY ← | conserved protein YhjY |
| RA | 3,779,794 | T→C | G247G (GGT→GGC) | lldR → | DNA‑binding transcriptional dual regulator LldR |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,834,428 | (G)6→7 | coding (110/2319 nt) | yicI ← | alpha‑D‑xyloside xylohydrolase |
| RA | 3,836,534 | (C)6→7 | intergenic (+218/‑419) | selC → / → setC | tRNA‑Sec/putative arabinose exporter |
| RA | 3,839,499 | T→C | L165L (TTA→TTG) | nlpA ← | lipoprotein‑28 |
| RA | 3,840,749 | T→C | T331A (ACC→GCC) | nepI ← | purine ribonucleoside exporter |
| RA | 3,844,614 | T→C | G217G (GGT→GGC) | adeD → | adenine deaminase |
| RA | 3,850,448 | (C)5→4 | coding (279/591 nt) | uhpA ← | DNA‑binding transcriptional activator UhpA |
| RA | 3,860,630 | (C)5→4 | coding (348/894 nt) | yidL → | putative DNA‑binding transcriptional regulator YidL |
| RA | 3,873,113 | T→C | D167G (GAC→GGC) | dgoA ← | 2‑dehydro‑3‑deoxy‑6‑phosphogalactonate aldolase |
| RA | 3,875,866 | T→C | C143C (TGT→TGC) | yidX → | putative lipoprotein YidX |
| RA | 3,902,076 | (T)5→6 | coding (145/1617 nt) | bglH ← | carbohydrate‑specific outer membrane porin, cryptic |
| RA | 3,908,697 | T→C | N248S (AAC→AGC) | pstA ← | phosphate ABC transporter membrane subunit PstA |
| RA | 3,917,574 | C→T | G231D (GGC→GAC) | atpG ← | ATP synthase F1 complex subunit gamma |
| RA | 3,925,443 | T→C | D64G (GAT→GGT) | mnmG ← | 5‑carboxymethylaminomethyluridine‑tRNA synthase subunit MnmG |
| RA | 4,012,958 | T→C | intergenic (‑142/‑95) | metR ← / → metE | DNA‑binding transcriptional dual regulator MetR/cobalamin‑independent homocysteine transmethylase |
| RA | 4,051,328 | G→A | intergenic (+48/‑19) | csrC → / → yihI | small regulatory RNA CsrC/Der GTPase‑activating protein YihI |
| RA | 4,058,009 | A→G | M9T (ATG→ACG) | glnA ← | glutamine synthetase |
| RA | 4,060,280 | (T)9→8 | intergenic (+50/‑167) | bipA → / → yihL | ribosome‑dependent GTPase, ribosome assembly factor/putative transcriptional regulator YihL |
| RA | 4,074,623 | A→G | S295S (TCA→TCG) | yihV → | 6‑deoxy‑6‑sulfofructose kinase |
| RA | 4,074,728 | C→T | A20A (GCC→GCT) | yihW → | putative DNA‑binding transcriptional regulator YihW |
| RA | 4,093,113 | A→G | intergenic (‑290/+11) | frvA ← / ← rhaM | putative PTS enzyme IIA component FrvA/L‑rhamnose mutarotase |
| RA | 4,094,673 | G→A | intergenic (‑401/+50) | rhaD ← / ← rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| RA | 4,094,683 | C→T | intergenic (‑411/+40) | rhaD ← / ← rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase |
| RA | 4,103,388 | C→T | H189H (CAC→CAT) | yiiM → | 2‑amino‑6‑N‑hydroxylaminopurine resistance protein |
| JC JC | 4,118,824 | IS4 (+) +12 bp | intergenic (+64/+10) | zapB → / ← rraA | cell division factor ZapB/ribonuclease E inhibitor protein A |
| RA | 4,137,062 | T→C | H199R (CAT→CGT) | yijF ← | conserved protein YijF |
| RA | 4,180,277 | T→C | R94R (CGT→CGC) | rplJ → | 50S ribosomal subunit protein L10 |
| RA | 4,187,647 | T→C | G766G (GGT→GGC) | rpoC → | RNA polymerase subunit beta' |
| RA | 4,194,999 | A→G | H367H (CAT→CAC) | thiC ← | phosphomethylpyrimidine synthase |
| RA | 4,197,289 | (C)5→4 | coding (387/774 nt) | nudC → | NADH pyrophosphatase |
| RA | 4,201,027 | A→G | R154R (AGA→AGG) | yjaH → | DUF1481 domain‑containing protein YjaH |
| RA | 4,201,888 | T→C | intergenic (‑200/‑38) | zraP ← / → zraS | zinc responsive, periplasmic protein with chaperone activity/sensory histidine kinase ZraS |
| RA | 4,224,209 | T→C | Y128H (TAC→CAC) | metH → | cobalamin‑dependent methionine synthase |
| RA | 4,271,224 | T→C | N883S (AAC→AGC) | uvrA ← | excision nuclease subunit A |
| RA | 4,277,950 | T→C | noncoding (117/140 nt) | ryjA ← | small RNA RyjA |
| RA | 4,293,106 | (G)7→8 | coding (1595/1659 nt) | nrfE → | putative cytochrome c‑type biogenesis protein NrfE |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,303,598 | A→G | V171A (GTA→GCA) | mdtN ← | putative multidrug efflux pump membrane fusion protein |
| RA | 4,310,361 | T→C | E207G (GAA→GGA) | alsA ← | D‑allose ABC transporter ATP binding subunit |
| RA | 4,322,651 | A→G | pseudogene (631/839 nt) | phnE ← | phosphonate ABC transporter membrane subunit |
| RA | 4,365,262 | A→G | L32P (CTG→CCG) | cutA ← | copper binding protein CutA |
| RA | 4,381,782 | G→A | G179G (GGC→GGT) | frdA ← | fumarate reductase flavoprotein subunit |
| RA | 4,392,811 | A→G | intergenic (+153/‑81) | glyY → / → yjeV | tRNA‑Gly/uncharacterized protein YjeV |
| RA | 4,410,053 | (T)9→8 | intergenic (+47/‑80) | rlmB → / → yjfI | 23S rRNA 2'‑O‑ribose G2251 methyltransferase/conserved protein YjfI |
| RA | 4,423,375 | A→G | N177S (AAT→AGT) | ulaE → | L‑ribulose‑5‑phosphate 3‑epimerase UlaE |
| RA | 4,429,721 | A→G | intergenic (+166/‑143) | fklB → / → cycA | FKBP‑type peptidyl‑prolyl cis‑trans isomerase FklB/serine/alanine/glycine/cycloserine:H(+)symporter |
| RA | 4,445,549 | A→G | T480A (ACC→GCC) | tamB → | translocation and assembly module subunit TamB |
| RA | 4,451,646 | A→G | S197G (AGC→GGC) | ytfR → | galactofuranose ABC transporter putative ATP binding subunit |
| RA | 4,492,583 | (G)6→7 | intergenic (‑58/+4) | idnT ← / ← idnO | L‑idonate/5‑ketogluconate/gluconate transporter/5‑keto‑D‑gluconate 5‑reductase |
| RA | 4,510,046 | A→G | pseudogene (243/330 nt) | yjhV → | KpLE2 phage‑like element; putative uncharacterized protein YjhV |
| RA | 4,514,148 | A→G | V54A (GTG→GCG) | fecB ← | ferric citrate ABC transporter periplasmic binding protein |
| RA | 4,514,423 | T→C | D752G (GAC→GGC) | fecA ← | ferric citrate outer membrane transporter |
| RA | 4,514,875 | G→A | S601S (TCC→TCT) | fecA ← | ferric citrate outer membrane transporter |
| RA | 4,562,396 | A→G | L94L (TTG→CTG) | yjiJ ← | putative transporter YjiJ |
| RA | 4,567,017 | A→G | I77T (ATC→ACC) | yjiN ← | DUF445 domain‑containing protein YjiN |
| RA | 4,568,451 | A→G | F23F (TTT→TTC) | mdtM ← | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| RA | 4,577,861 | A→G | I33T (ATA→ACA) | mcrC ← | 5‑methylcytosine‑specific restriction enzyme subunit McrC |
| RA | 4,578,851 | A→G | S163P (TCA→CCA) | mcrB ← | 5‑methylcytosine‑specific restriction enzyme subunit McrB |
| RA | 4,593,220 | C→T | R522C (CGT→TGT) | tsr → | methyl‑accepting chemotaxis protein Tsr |
| RA | 4,595,207 | A→G | D215D (GAT→GAC) | lgoR ← | putative DNA‑binding transcriptional regulator LgoR |
| RA | 4,606,094 | (G)8→9 | noncoding (72/87 nt) | leuV ← | tRNA‑Leu |
| RA | 4,606,215 | (G)8→9 | noncoding (72/87 nt) | leuP ← | tRNA‑Leu |
| RA | 4,636,586 | A→G | T194A (ACC→GCC) | creB → | DNA‑binding transcriptional regulator CreB |
| RA | 4,637,743 | (A)9→8 | coding (1048/1425 nt) | creC → | sensory histidine kinase CreC |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 227116–228673 | 228889–228689 | 17–1774 | 11 [9] | [9] 10 | [rrlH]–rrfH | [rrlH],rrfH |
| * | * | ÷ | NC_000913 | 1097071–1097157 | 1097562–1097163 | 7–492 | 10 [9] | [9] 10 | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | * | ÷ | NC_000913 | 1196280 | 1211417 | 15138 | 10 [9] | [5] 10 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 1552134–1552184 | 1552235–1552213 | 30–102 | 10 [8] | [9] 12 | fdnI/yddM | formate dehydrogenase N subunit gamma/putative DNA‑binding transcriptional regulator YddM |
| * | * | ÷ | NC_000913 | 1633338–1634066 | 1634907–1634098 | 33–1570 | 11 [9] | [9] 10 | pinQ–[ydfN] | pinQ,tfaQ,[ydfN] |
| * | * | ÷ | NC_000913 | 3423776–3424231 | 3424523–3424239 | 9–748 | 10 [9] | [6] 10 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 374963 | NA (NA) | 7 (0.210) | 7/190 | 2.2 | NA | noncoding (33/34 nt) | other | REP31a |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 59 (1.240) | 41/268 | 0.1 | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 3363001 = | 86 (1.750) | 111 (2.270) | 55/274 | 0.0 | 72.2% | 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) | 56 (1.140) | 43/276 | 0.1 | 93.3% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 4 (0.080) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||