mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 6,809 | T→G | K384T (AAA→ACA) | yaaJ ← | putative transporter |
| RA | 25,474 | T→G | S90A (TCG→GCG) | lspA → | prolipoprotein signal peptidase (signal peptidase II) |
| RA | 76,539 | T→G | E254A (GAA→GCA) | sgrR ← | transcriptional DNA‑binding transcriptional activator of sgrS sRNA |
| RA | 95,418 | T→G | S257A (TCG→GCG) | murF → | UDP‑N‑acetylmuramoyl‑tripeptide:D‑alanyl‑D‑ alanine ligase |
| JC JC | 111,051 | IS1 (–) +9 bp | coding (8‑16/390 nt) | mutT → | dGTP‑preferring nucleoside triphosphate pyrophosphohydrolase |
| RA | 133,452 | A→C | K613T (AAA→ACA) | acnB → | aconitate hydratase 2; aconitase B; 2‑methyl‑cis‑aconitate hydratase |
| RA | 142,754 | A→C | intergenic (‑84/‑25) | can ← / → yadG | carbonic anhydrase/putative ABC transporter ATPase |
| RA | 143,263 | A→C | E162A (GAA→GCA) | yadG → | putative ABC transporter ATPase |
| RA | 162,349 | A→C | Y82S (TAC→TCC) | hrpB → | putative ATP‑dependent helicase |
| RA | 213,847 | T→G | E29A (GAG→GCG) | rof ← | modulator of Rho‑dependent transcription termination |
| RA | 243,021 | T→G | T95P (ACC→CCC) | fadE ← | acyl coenzyme A dehydrogenase |
| RA | 257,298 | A→C | N258H (AAC→CAC) | frsA → | fermentation‑respiration switch protein; PTS Enzyme IIA(Glc)‑binding protein; pNP‑butyrate esterase activity |
| MC JC | 257,908 | Δ776 bp | [crl] | [crl] | |
| RA | 299,214 | A→C | F574C (TTC→TGC) | paoC ← | PaoABC aldehyde oxidoreductase, Moco‑containing subunit |
| RA | 301,463 | T→G | E142A (GAA→GCA) | paoB ← | PaoABC aldehyde oxidoreductase, FAD‑containing subunit |
| RA | 313,275 | T→G | intergenic (‑33/+441) | ykgR ← / ← ykgP | uncharacterized protein/pseudogene, oxidoreductase family |
| RA | 316,817 | T→G | pseudogene (353/684 nt) | ykgA ← | pseudogene, AraC family;putative regulator; Not classified; putative ARAC‑type regulatory protein |
| RA | 366,811 | T→G | N234H (AAT→CAT) | lacI ← | lactose‑inducible lac operon transcriptional repressor |
| RA | 394,041 | T→G | pseudogene (1072/1449 nt) | yaiT → | pseudogene, autotransporter family;putative structure; Not classified; interrupted by IS3; putative flagellin structural protein |
| RA | 400,871 | T→G | E18A (GAA→GCA) | ddlA ← | D‑alanine‑D‑alanine ligase A |
| RA | 402,002 | T→G | Y86D (TAT→GAT) | phoA → | bacterial alkaline phosphatase |
| RA | 463,948 | A→C | G4G (GGA→GGC) | ybaV → | putative competence‑suppressing periplasmic helix‑hairpin‑helix DNA‑binding protein |
| RA | 480,566 | A→C | L48W (TTG→TGG) | tomB ← | Hha toxicity attenuator; conjugation‑related protein |
| RA | 491,048 | T→G | F56C (TTT→TGT) | ybaN → | DUF454 family inner membrane protein |
| RA | 519,286 | A→C | V160V (GTT→GTG) | tesA ← | acyl‑CoA thioesterase 1 and protease I and lysophospholipase L1 |
| RA | 546,173 | T→G | E64A (GAA→GCA) | allD ← | ureidoglycolate dehydrogenase |
| RA | 568,937 | A→C | S12S (TCA→TCC) | ybcK → | DLP12 prophage; putative recombinase |
| RA | 570,560 | A→C | intergenic (+132/‑333) | ybcK → / → ybcL | DLP12 prophage; putative recombinase/inactive polymorphonuclear leukocyte migration suppressor; DLP12 prophage; UPF0098 family secreted protein |
| RA | 576,137 | T→G | pseudogene (689/1040 nt) | nmpC ← | DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage |
| RA | 611,121 | A→C | S458R (AGT→AGG) | fepA ← | ferrienterobactin outer membrane transporter |
| RA | 615,736 | A→C | E527A (GAA→GCA) | entF → | enterobactin synthase multienzyme complex component, ATP‑dependent |
| RA | 619,006 | A→C | G251G (GGA→GGC) | fepE → | regulator of length of O‑antigen component of lipopolysaccharide chains |
| RA | 623,458 | T→G | L387V (TTG→GTG) | entS → | enterobactin exporter, iron‑regulated |
| RA | 650,553 | T→G | A77A (GCA→GCC) | citD ← | citrate lyase, acyl carrier (gamma) subunit |
| RA | 653,352 | A→C | Q373P (CAG→CCG) | citA → | sensory histidine kinase in two‑component regulatory system with CitB |
| RA | 733,589 | T→G | L1336* (TTA→TGA) | rhsC → | Rhs protein with putative toxin domain; putative neighboring cell growth inhibitor |
| RA | 741,597 | T→G | A320A (GCA→GCC) | dtpD ← | dipeptide and tripeptide permease D |
| RA | 754,738 | A→C | intergenic (‑270/‑439) | gltA ← / → sdhC | citrate synthase/succinate dehydrogenase, membrane subunit, binds cytochrome b556 |
| RA | 783,757 | A→C | I198L (ATT→CTT) | pnuC → | nicotinamide riboside transporter |
| RA | 798,817 | T→G | S78A (TCT→GCT) | pgl → | 6‑phosphogluconolactonase |
| RA | 825,545 | T→G | V188V (GTA→GTC) | ybhR ← | putative ABC transporter permease |
| RA | 846,198 | A→C | F89C (TTC→TGC) | glnQ ← | glutamine transporter subunit |
| RA | 917,078 | T→G | D202E (GAT→GAG) | ybjD → | putative OLD family ATP‑dependent endonuclease; DUF2813 family protein |
| RA | 921,236 | A→C | K297T (AAA→ACA) | macB → | macrolide ABC transporter peremase/ATPase |
| RA | 924,571 | T→G | I436M (ATT→ATG) | clpA → | ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity |
| RA | 930,957 | A→C | N2K (AAT→AAG) | cydD ← | glutathione/cysteine ABC transporter export permease/ATPase |
| RA | 954,603 | T→G | intergenic (‑137/+269) | focA ← / ← ycaO | formate channel/ribosomal protein S12 methylthiotransferase accessory factor |
| RA | 960,657 | C→T | L132L (CTG→TTG) | ycaL → | putative peptidase‑related chaperone |
| RA | 987,767 | T→G | M407L (ATG→CTG) | asnS ← | asparaginyl tRNA synthetase |
| RA | 1,035,960 | T→G | L64R (CTC→CGC) | hyaD → | hydrogenase 1 maturation protease |
| RA | 1,048,134 | A→C | N186K (AAT→AAG) | gfcC ← | putative O‑antigen capsule production periplasmic protein |
| RA | 1,078,882 | T→G | M1M (ATG→CTG) † | putA ← | fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase |
| RA | 1,091,002 | T→G | N430H (AAC→CAC) | pgaA ← | biofilm adhesin polysaccharide PGA secretin; OM porin; poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein |
| RA | 1,114,259 | A→C | intergenic (‑78/+5) | msyB ← / ← mdtG | multicopy suppressor of secY and secA/putative drug efflux system protein |
| RA | 1,134,118 | A→C | Q106P (CAG→CCG) | flgF → | flagellar component of cell‑proximal portion of basal‑body rod |
| RA | 1,139,916 | T→G | D513E (GAT→GAG) | flgK → | flagellar hook‑filament junction protein 1 |
| RA | 1,183,048 | T→G | L191F (TTA→TTC) | potC ← | spermidine/putrescine ABC transporter permease |
| RA | 1,192,380 | T→G | E84D (GAA→GAC) | hflD ← | putative lysogenization regulator |
| RA | 1,224,314 | T→G | N78H (AAC→CAC) | minE ← | cell division topological specificity factor |
| RA | 1,256,574 | T→G | intergenic (‑622/+147) | ycgV ← / ← ychF | putative adhesin/catalase inhibitor protein; ATPase, K+‑dependent, ribosome‑associated |
| RA | 1,290,933 | T→G | L231R (CTT→CGT) | rssB → | PcnB‑degradosome interaction factor; response regulator |
| MC JC | 1,299,499 | Δ1,199 bp | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,325,833 | T→G | V363G (GTC→GGC) | yciQ → | enhancer of membrane protein expression; putative inner membrane protein |
| RA | 1,326,908 | A→C | E19D (GAA→GAC) | rluB → | 23S rRNA pseudouridine(2605) synthase |
| RA | 1,343,516 | A→C | intergenic (‑188/+81) | osmB ← / ← yciT | osmotically and stress inducible lipoprotein/global regulator of transcription; DeoR family |
| RA | 1,424,158 | T→G | L126* (TTA→TGA) | trkG → | Rac prophage; potassium transporter subunit |
| RA | 1,432,583 | T→G | F58C (TTC→TGC) | tfaR → | Rac prophage; putative tail fiber assembly protein |
| RA | 1,438,947 | T→G | E613A (GAA→GCA) | pfo ← | pyruvate‑flavodoxin oxidoreductase |
| RA | 1,461,931 | A→C | N347H (AAC→CAC) | paaJ → | 3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase |
| RA | 1,479,936 | A→C | N267H (AAC→CAC) | ynbC → | putative esterase |
| RA | 1,486,556 | A→C | I1166L (ATC→CTC) | hrpA → | putative ATP‑dependent helicase |
| RA | 1,546,032 | A→C | intergenic (‑4/+256) | yddL ← / ← yddG | putative lipoprotein;putative membrane; Not classified; putative outer membrane porin protein/aromatic amino acid exporter |
| RA | 1,562,611 | A→C | F156V (TTT→GTT) | ddpX ← | D‑ala‑D‑ala dipeptidase, Zn‑dependent |
| RA | 1,571,816 | T→G | D77A (GAT→GCT) | gadB ← | glutamate decarboxylase B, PLP‑dependent |
| RA | 1,575,705 | T→G | N639H (AAC→CAC) | yddB ← | putative TonB‑dependent outer membrane receptor |
| RA | 1,597,634 | A→C | pseudogene (354/3861 nt) | yneO ← | pseudogene, AidA homolog |
| RA | 1,676,734 | T→G | K390N (AAA→AAC) | pntA ← | pyridine nucleotide transhydrogenase, alpha subunit |
| RA | 1,681,460 | T→G | M162R (ATG→AGG) | folM → | dihydromonapterin reductase, NADPH‑dependent; dihydrofolate reductase isozyme |
| RA | 1,714,643 | T→G | I89M (ATT→ATG) | gstA → | glutathionine S‑transferase |
| RA | 1,742,506 | T→G | L365R (CTC→CGC) | cfa → | cyclopropane fatty acyl phospholipid synthase, SAM‑dependent |
| RA | 1,756,929 | T→G | L411R (CTG→CGG) | pykF → | pyruvate kinase I |
| RA | 1,815,451 | T→G | F529V (TTT→GTT) | katE → | catalase HPII, heme d‑containing |
| RA | 1,822,043 | T→G | I72L (ATC→CTC) | osmE ← | osmotically‑inducible lipoprotein |
| RA | 1,830,953 | T→G | N344H (AAT→CAT) | astC ← | succinylornithine transaminase, PLP‑dependent |
| RA | 1,869,873 | T→G | F307V (TTC→GTC) | yeaH → | UPF0229 family protein |
| RA | 1,896,050 | A→C | N416H (AAC→CAC) | pabB → | aminodeoxychorismate synthase, subunit I |
| RA | 1,921,059 | T→G | P279P (CCT→CCG) | rsmF → | 16S rRNA m(5)C1407 methyltransferase, SAM‑dependent |
| RA | 1,927,578 | A→C | I421R (ATA→AGA) | ptrB ← | protease II |
| RA | 1,962,412 | A→C | L147L (CTA→CTC) | yecT → | uncharacterized protein |
| JC JC | 1,979,486 | IS5 (+) +4 bp | intergenic (‑271/‑264) | insA ← / → uspC | IS1 repressor TnpA/universal stress protein |
| RA | 2,008,526 | A→C | I84L (ATC→CTC) | yedE → | UPF0394 family sulphur transport domain‑containing inner membrane protein |
| RA | 2,010,994 | A→C | D132A (GAT→GCT) | yedL → | GNAT family putative N‑acetyltransferase |
| RA | 2,020,656 | T→G | N190K (AAT→AAG) | fliM → | flagellar motor switching and energizing component |
| RA | 2,021,050 | A→C | N322H (AAC→CAC) | fliM → | flagellar motor switching and energizing component |
| RA | 2,036,444 | T→G | Y204D (TAT→GAT) | hchA → | glyoxalase III and Hsp31 molecular chaperone |
| RA | 2,075,512 | T→G | L245R (CTG→CGG) | yeeR → | CP4‑44 prophage; putative membrane protein |
| RA | 2,077,040 | T→G | intergenic (+2/‑72) | yeeT → / → cbeA | CP4‑44 prophage; uncharacterized protein/CP4‑44 prophage; cytoskeleton bundling‑enhancing factor A; CbtA antitoxin |
| RA | 2,110,741 | A→C | F93L (TTT→TTG) | rfbA ← | glucose‑1‑phosphate thymidylyltransferase |
| RA | 2,127,751 | T→G | E188D (GAA→GAC) | gmd ← | GDP‑D‑mannose dehydratase, NAD(P)‑binding |
| RA | 2,151,093 | T→G | intergenic (‑108/‑92) | yegI ← / → yegJ | protein kinase‑related putative non‑specific DNA‑binding protein/uncharacterized protein |
| RA | 2,170,272 | A→C | K13Q (AAA→CAA) | insE1 → | IS3 transposase A |
| RA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| RA | 2,179,614 | T→G | F265C (TTC→TGC) | yegT → | nucleoside transporter, low affinity |
| RA | 2,185,809 | T→G | intergenic (‑13/‑108) | rcnR ← / → rcnA | transcriptional repressor of rcnA/membrane protein conferring nickel and cobalt resistance |
| RA | 2,208,622 | T→G | L219* (TTA→TGA) | yehP → | VMA domain putative YehL ATPase stimulator |
| RA | 2,221,860 | T→G | K44Q (AAA→CAA) | bglX ← | beta‑D‑glucoside glucohydrolase, periplasmic |
| RA | 2,273,796 | A→C | D478A (GAC→GCC) | yejA → | microcin C ABC transporter periplasmic binding protein |
| RA | 2,278,486 | T→G | intergenic (‑249/+84) | yejG ← / ← bcr | uncharacterized protein/bicyclomycin/cysteine/sulfonamide efflux transporter |
| RA | 2,281,112 | A→C | I161L (ATC→CTC) | yejH → | putative ATP‑dependent DNA or RNA helicase |
| RA | 2,292,894 | A→C | L24R (CTG→CGG) | dsbE ← | periplasmic thioredoxin of cytochrome c‑type biogenesis |
| RA | 2,318,639 | A→C | F413C (TTT→TGT) | rcsC ← | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| RA | 2,323,353 | T→G | intergenic (+102/‑94) | atoC → / → atoD | fused response regulator of ato operon, in two‑component system with AtoS: response regulator/sigma54 interaction protein/acetyl‑CoA:acetoacetyl‑CoA transferase, alpha subunit |
| RA | 2,387,305 | G→A | P124P (CCG→CCA) | yfbM → | DUF1877 family protein |
| RA | 2,395,394 | A→C | L168R (CTG→CGG) | nuoJ ← | NADH:ubiquinone oxidoreductase, membrane subunit J |
| RA | 2,398,075 | A→C | I697M (ATT→ATG) | nuoG ← | NADH:ubiquinone oxidoreductase, chain G |
| RA | 2,421,142 | T→G | T174T (ACT→ACG) | yfcG → | GSH‑dependent disulfide bond oxidoreductase |
| RA | 2,488,822 | A→C | L116R (CTT→CGT) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 2,503,731 | T→G | E252A (GAA→GCA) | fryA ← | putative PTS enzyme: Hpr, enzyme I and IIA components |
| RA | 2,518,687 | A→C | E74A (GAA→GCA) | yfeC → | DUF1323 family putative DNA‑binding protein |
| RA | 2,547,053 | T→G | G127G (GGT→GGG) | murP → | N‑acetylmuramic acid permease, EIIBC component, PTS system |
| RA | 2,589,778 | T→G | D728E (GAT→GAG) | acrD → | aminoglycoside/multidrug efflux system |
| RA | 2,624,901 | T→G | Y620D (TAT→GAT) | ppk → | polyphosphate kinase, component of RNA degradosome |
| RA | 2,668,449 | A→C | Y150D (TAT→GAT) | hcaR ← | hca operon transcriptional regulator |
| RA | 2,717,422 | A→C | V223V (GTA→GTC) | ung → | uracil‑DNA‑glycosylase |
| RA | 2,769,390 | A→C | R242R (CGA→CGC) | yfjQ → | CP4‑57 prophage; uncharacterized protein |
| RA | 2,869,491 | A→C | L10R (CTG→CGG) | pcm ← | L‑isoaspartate protein carboxylmethyltransferase type II |
| RA | 2,899,375 | A→C | I15S (ATT→AGT) | ygcU ← | putative FAD‑linked oxidoreductase |
| RA | 2,904,306 | T→G | intergenic (+932/+441) | ygcE → / ← queE | putative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis |
| RA | 2,912,404 | A→C | V416V (GTT→GTG) | relA ← | (p)ppGpp synthetase I/GTP pyrophosphokinase |
| RA | 2,934,721 | T→G | S163A (TCG→GCG) | fucP → | L‑fucose transporter |
| RA | 2,942,844 | T→G | noncoding (149/206 nt) | gcvB → | sRNA antisense regulator represses oppA, dppA, gltI and livJ expression, Hfq‑dependent |
| RA | 2,956,720 | T→G | K722T (AAA→ACA) | ptrA ← | protease III |
| RA | 2,968,180 | T→G | I85I (ATA→ATC) | ptsP ← | PEP‑protein phosphotransferase enzyme I; GAF domain containing protein |
| RA | 3,009,624 | A→C | K287N (AAA→AAC) | ygeY → | putative peptidase |
| RA | 3,014,506 | T→G | Q184H (CAA→CAC) | yqeC ← | putative selenium‑dependent hydroxylase accessory protein |
| RA | 3,040,512 | A→C | G104G (GGT→GGG) | cptA ← | toxin of CptAB toxin‑antitoxin pair |
| RA | 3,044,628 | A→C | K323Q (AAG→CAG) | bglA → | 6‑phospho‑beta‑glucosidase A |
| RA | 3,052,652 | T→G | Q289H (CAA→CAC) | ubiH ← | 2‑octaprenyl‑6‑methoxyphenol hydroxylase, FAD/NAD(P)‑binding |
| RA | 3,082,025 | A→C | Y38S (TAC→TCC) | loiP → | Phe‑Phe periplasmic metalloprotease, OM lipoprotein; low salt‑inducible; Era‑binding heat shock protein |
| RA | 3,089,170 | T→G | V296G (GTC→GGC) | galP → | D‑galactose transporter |
| RA | 3,101,594 | T→G | A10A (GCA→GCC) | yggN ← | DUF2884 family putative periplasmic protein |
| RA | 3,123,491 | A→C | I105M (ATT→ATG) | glcB ← | malate synthase G |
| RA | 3,174,035 | T→G | E454D (GAA→GAC) | parE ← | DNA topoisomerase IV, subunit B |
| RA | 3,174,612 | A→C | L262R (CTG→CGG) | parE ← | DNA topoisomerase IV, subunit B |
| RA | 3,182,529 | A→C | intergenic (‑122/‑21) | ygiD ← / → zupT | 4,5‑ DOPA‑extradiol‑dioxygenase/zinc transporter |
| RA | 3,197,496 | T→G | T716P (ACT→CCT) | glnE ← | fused deadenylyltransferase/adenylyltransferase for glutamine synthetase |
| RA | 3,198,644 | A→C | F333C (TTC→TGC) | glnE ← | fused deadenylyltransferase/adenylyltransferase for glutamine synthetase |
| RA | 3,271,880 | T→G | E291A (GAA→GCA) | garR ← | tartronate semialdehyde reductase |
| RA | 3,290,794 | A→C | I661L (ATC→CTC) | yraJ → | putative outer membrane protein |
| RA | 3,327,851 | T→G | V21G (GTT→GGT) | yhbY → | RNA binding protein associated with pre‑50S ribosomal subunits |
| RA | 3,393,985 | A→C | P758P (CCT→CCG) | yhdP ← | DUF3971‑AsmA2 domains protein |
| RA | 3,399,779 | A→C | L67R (CTG→CGG) | mreC ← | cell wall structural complex MreBCD transmembrane component MreC |
| RA | 3,408,510 | A→C | T302P (ACC→CCC) | panF → | pantothenate:sodium symporter |
| RA | 3,439,399 | A→C | S37S (TCT→TCG) | yhdN ← | DUF1992 family protein |
| RA | 3,452,188 | A→C | V33V (GTT→GTG) | rplD ← | 50S ribosomal subunit protein L4 |
| RA | 3,468,138 | T→G | G572G (GGA→GGC) | chiA ← | periplasmic endochitinase |
| RA | 3,473,612 | A→C | L157* (TTA→TGA) | rpsG ← | 30S ribosomal subunit protein S7 |
| RA | 3,488,471 | A→C | N561H (AAC→CAC) | yhfK → | putative transporter, FUSC superfamily inner membrane protein |
| RA | 3,515,115 | A→C | L267V (TTG→GTG) | dam ← | DNA adenine methyltransferase |
| RA | 3,519,300 | T→G | intergenic (‑236/+165) | aroK ← / ← hofQ | shikimate kinase I/DNA catabolic putative fimbrial transporter |
| RA | 3,520,438 | A→C | L89R (CTC→CGC) | hofQ ← | DNA catabolic putative fimbrial transporter |
| RA | 3,540,754 | T→G | I116M (ATT→ATG) | feoB → | ferrous iron transporter protein B and GTP‑binding protein; membrane protein |
| RA | 3,559,559 | T→G | I431S (ATC→AGC) | rtcR → | sigma 54‑dependent transcriptional regulator of rtcBA expression |
| RA | 3,559,766 | A→C | Q500P (CAG→CCG) | rtcR → | sigma 54‑dependent transcriptional regulator of rtcBA expression |
| RA | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,577,196 | T→G | M133L (ATG→CTG) | gntK ← | gluconate kinase 2 |
| RA | 3,600,185 | T→G | Y200S (TAT→TCT) | rpoH ← | RNA polymerase, sigma 32 (sigma H) factor |
| RA | 3,602,989 | T→G | I419L (ATT→CTT) | ftsY ← | Signal Recognition Particle (SRP) receptor |
| RA | 3,623,709 | T→G | I104S (ATT→AGT) | yhhH → | putative NTF2 fold immunity protein for polymorphic toxin RhsB |
| RA | 3,633,028 | T→G | pseudogene (238/414 nt) | yhiL ← | pseudogene, DUF4049 family protein |
| RA | 3,662,163 | A→C | N584H (AAC→CAC) | mdtF → | anaerobic multidrug efflux transporter, ArcA‑regulated |
| RA | 3,679,181 | T→G | R3R (AGG→CGG) | yhjH ← | cyclic‑di‑GMP phosphodiesterase, FlhDC‑regulated |
| RA | 3,689,996 | A→C | L89* (TTA→TGA) | bcsZ ← | endo‑1,4‑D‑glucanase |
| RA | 3,697,854 | A→C | Q466P (CAA→CCA) | bcsE → | cellulose production protein |
| RA | 3,708,080 | T→G | intergenic (‑375/+536) | dppA ← / ← proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| RA | 3,710,019 | T→G | T153P (ACC→CCC) | eptB ← | KDO phosphoethanolamine transferase, Ca(2+)‑inducible |
| RA | 3,714,488 | A→C | L636W (TTG→TGG) | bisC ← | biotin sulfoxide reductase |
| RA | 3,716,242 | A→C | V51V (GTT→GTG) | bisC ← | biotin sulfoxide reductase |
| RA | 3,725,176 | T→G | E48A (GAG→GCG) | glyQ ← | glycine tRNA synthetase, alpha subunit |
| RA | 3,749,326 | A→C | D32A (GAT→GCT) | sgbU → | putative L‑xylulose 5‑phosphate 3‑epimerase |
| RA | 3,752,058 | A→C | I23L (ATC→CTC) | yiaU → | putative DNA‑binding transcriptional regulator |
| RA | 3,790,919 | A→C | L143V (TTA→GTA) | tdh ← | L‑threonine 3‑dehydrogenase, NAD(P)‑binding |
| RA | 3,802,005 | T→G | intergenic (‑6/+34) | waaR ← / ← waaO | lipopolysaccharide 1,2‑glucosyltransferase; UDP‑glucose:(glucosyl)LPS alpha‑1,2‑glucosyltransferase/UDP‑D‑galactose:(glucosyl)lipopolysaccharide‑ alpha‑1,3‑D‑galactosyltransferase |
| MC JC | 3,815,859 | Δ82 bp | [rph]–[rph] | [rph], [rph] | |
| RA | 3,823,774 | A→C | N459H (AAC→CAC) | spoT → | bifunctional (p)ppGpp synthetase II/ guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| RA | 3,913,683 | A→C | intergenic (‑15/+147) | glmS ← / ← glmU | L‑glutamine:D‑fructose‑6‑phosphate aminotransferase/fused N‑acetyl glucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyl transferase |
| RA | 3,939,836 | A→C | F259L (TTT→TTG) | hsrA ← | putative multidrug or homocysteine efflux system |
| RA | 3,966,875 | T→G | S153S (TCT→TCG) | rho → | transcription termination factor |
| RA | 3,972,452 | A→C | Q398P (CAG→CCG) | wecC → | UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase |
| RA | 4,008,222 | A→C | I156L (ATC→CTC) | rhtC → | threonine efflux pump |
| RA | 4,012,707 | A→C | F37C (TTT→TGT) | metR ← | methionine biosynthesis regulon transcriptional regulator |
| RA | 4,024,756 | T→G | E22D (GAA→GAC) | rfaH ← | transcription antitermination protein |
| RA | 4,031,324 | A→C | Q55P (CAA→CCA) | pepQ → | proline dipeptidase |
| RA | 4,046,123 | A→C | H160Q (CAT→CAG) | yihG ← | inner membrane protein, inner membrane acyltransferase |
| RA | 4,046,716 | A→C | intergenic (‑114/‑250) | yihG ← / → polA | inner membrane protein, inner membrane acyltransferase/5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease |
| RA | 4,061,235 | A→C | Y24S (TAT→TCT) | yihM → | putative sugar phosphate isomerase |
| RA | 4,117,812 | T→G | Q93H (CAA→CAC) | glpF ← | glycerol facilitator |
| RA | 4,146,625 | T→G | L123R (CTT→CGT) | pflC → | putative [formate‑C‑acetyltransferase 2]‑activating enzyme; pyruvate formate‑lyase 1‑activating enzyme |
| RA | 4,186,603 | A→C | E418D (GAA→GAC) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,190,100 | T→G | I105M (ATT→ATG) | yjaZ → | stationary phase growth adaptation protein |
| RA | 4,215,122 | T→G | G281G (GGT→GGG) | metA → | homoserine O‑transsuccinylase |
| RA | 4,222,536 | A→C | intergenic (‑49/+268) | arpA ← / ← iclR | ankyrin repeat protein/transcriptional repressor |
| RA | 4,229,644 | T→G | K167Q (AAA→CAA) | pepE ← | peptidase E, alpha‑aspartyl dipeptidase |
| RA | 4,231,659 | T→G | intergenic (‑28/+225) | yjbD ← / ← lysC | DUF3811 family protein/lysine‑sensitive aspartokinase 3 |
| RA | 4,260,939 | T→G | I114S (ATT→AGT) | yjbM → | uncharacterized protein |
| RA | 4,285,713 | A→C | N553K (AAT→AAG) | acs ← | acetyl‑CoA synthetase |
| RA | 4,291,339 | T→G | I288M (ATT→ATG) | nrfD → | formate‑dependent nitrite reductase, membrane subunit |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| RA | 4,307,372 | A→C | M143R (ATG→AGG) | alsK ← | D‑allose kinase |
| RA | 4,313,090 | T→G | intergenic (‑99/‑260) | alsR ← / → rpiB | d‑allose‑inducible als operon transcriptional repressor; autorepressor; repressor of rpiR/ribose 5‑phosphate isomerase B/allose 6‑phosphate isomerase |
| RA | 4,358,516 | A→C | V34V (GTT→GTG) | cadA ← | lysine decarboxylase, acid‑inducible |
| RA | 4,403,148 | A→C | N371H (AAC→CAC) | hflK → | modulator for HflB protease specific for phage lambda cII repressor |
| RA | 4,408,287 | A→C | Q545P (CAG→CCG) | rnr → | exoribonuclease R, RNase R |
| RA | 4,420,658 | A→C | N227H (AAC→CAC) | ulaA → | L‑ascorbate‑specific enzyme IIC permease component of PTS |
| RA | 4,475,797 | A→C | I121L (ATT→CTT) | yjgL → | SopA‑central‑domain‑like hexapeptide repeat protein |
| RA | 4,477,084 | A→C | N550H (AAT→CAT) | yjgL → | SopA‑central‑domain‑like hexapeptide repeat protein |
| RA | 4,522,275 | T→G | H607P (CAT→CCT) | yjhG ← | putative dehydratase |
| RA | 4,548,617 | A→C | L111L (CTA→CTC) | fimG → | minor component of type 1 fimbriae |
| RA | 4,559,230 | T→G | S99S (TCA→TCC) | iadA ← | isoaspartyl dipeptidase |
| RA | 4,566,805 | T→G | I148L (ATT→CTT) | yjiN ← | zinc‑type alcohol dehydrogenase‑like protein |
| RA | 4,595,235 | A→C | F206C (TTT→TGT) | lgoR ← | putative transcriptional activator for L‑galactonate catabolism |
| RA | 4,613,561 | C→T | R27R (CGC→CGT) | yjjV → | putative DNase |
| RA | 4,628,633 | A→C | intergenic (+86/+222) | nadR → / ← ettA | trifunctional protein: nicotinamide mononucleotide adenylyltransferase, ribosylnicotinamide kinase, transcriptional repressor/energy‑dependent translational throttle A |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423836–3424233 | 3424473–3424238 | 6–638 | 21 [20] | [20] 21 | [rrlD] | [rrlD] |
| * | * | ÷ | NC_000913 | 4472196 | 4472259 | 64 | 21 [19] | [7] 28 | pyrB | aspartate carbamoyltransferase, catalytic subunit |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1978502 | 0 (0.000) | 64 (1.000) | 50/410 | 0.2 | 100% | intergenic (‑305/+16) | flhD/insB1 | flagellar class II regulon transcriptional activator, with FlhC/IS1 transposase B |
| ? | NC_000913 | 1979279 = | 0 (0.000) | intergenic (‑64/‑474) | insA/uspC | IS1 repressor TnpA/universal stress protein | |||||