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 | 1,725 | T→C | D463D (GAT→GAC) | thrA → | bifunctional aspartate kinase/homoserine dehydrogenase I |
| RA | 28,032 | T→C | F247S (TTC→TCC) | rihC → | ribonucleoside hydrolase RihC |
| RA | 116,817 | T→C | I408V (ATC→GTC) | aroP ← | aromatic amino acid transporter AroP |
| RA | 121,596 | A→G | H698R (CAC→CGC) | aceE → | pyruvate dehydrogenase (acetyl‑transferring), homodimeric type |
| RA | 139,901 | T→G | G212G (GGT→GGG) | yadG → | ABC transporter ATP‑binding protein |
| RA | 159,790 | A→G | E400G (GAG→GGG) | hrpB → | ATP‑dependent helicase HrpB |
| RA | 183,254 | T→C | G628G (GGA→GGG) | glnD ← | bifunctional uridylyltransferase/uridylyl‑removing protein GlnD |
| RA | 198,290 | A→G | E278G (GAA→GGA) | lpxD → | UDP‑3‑O‑(3‑hydroxymyristoyl)glucosamine N‑acyltransferase |
| RA | 204,438 | A→G | Q942Q (CAA→CAG) | dnaE → | DNA polymerase III subunit alpha |
| RA | 230,562 | T→C | Q236Q (CAA→CAG) | gloB ← | hydroxyacylglutathione hydrolase |
| RA | 232,843 | T→G | I97S (ATC→AGC) | dnaQ → | DNA polymerase III subunit epsilon |
| RA | 235,808 | Δ1 bp | pseudogene (222/279 nt) | BW25113_RS25420 → | ISAs1 family transposase |
| RA | 278,554 | A→G | H189R (CAC→CGC) | yagE → | 2‑keto‑3‑deoxygluconate aldolase |
| RA | 302,805 | T→C | M747V (ATG→GTG) | ecpC ← | fimbrial usher EcpC |
| RA | 328,409 | C→T | P110S (CCT→TCT) | pdeL → | DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL |
| RA | 333,799 | A→T | G437G (GGA→GGT) | fdrA → | acyl‑CoA synthetase FdrA |
| RA | 375,377 | (G)6→7 | intergenic (‑40/+148) | frmR ← / ← yaiO | formaldehyde‑responsive transcriptional repressor FrmR/YaiO family outer membrane beta‑barrel protein |
| RA | 410,572 | A→T | L213H (CTC→CAC) | sbcC ← | exonuclease subunit SbcC |
| RA | 411,160 | T→C | E17G (GAA→GGA) | sbcC ← | exonuclease subunit SbcC |
| RA | 432,061 | G→A | T324T (ACG→ACA) R6H (CGC→CAC) |
thiL → pgpA → |
thiamine‑phosphate kinase phosphatidylglycerophosphatase A |
| RA | 436,468 | A→G | T30T (ACT→ACC) | ispA ← | (2E,6E)‑farnesyl diphosphate synthase |
| RA | 471,023 | G→A | P63P (CCG→CCA) | ybaY → | YbaY family lipoprotein |
| RA | 485,717 | T→C | E4G (GAA→GGA) | rsmS ← | pleiotropic regulatory protein RsmS |
| RA | 497,636 | T→C | G353G (GGA→GGG) | ybaL ← | Kef family K(+) transporter |
| RA | 500,101 | T→C | T18A (ACC→GCC) | fsr ← | fosmidomycin MFS transporter |
| RA | 502,603 | (A)8→7 | intergenic (‑65/+139) | ybaK ← / ← ybaP | Cys‑tRNA(Pro)/Cys‑tRNA(Cys) deacylase YbaK/TraB/GumN family protein |
| RA | 513,425 | Δ1 bp | coding (311/855 nt) | cnoX ← | chaperedoxin |
| RA | 527,001 | T→C | E226G (GAA→GGA) | allS ← | HTH‑type transcriptional activator AllS |
| RA | 541,549 | Δ1 bp | coding (271/1050 nt) | allD ← | ureidoglycolate dehydrogenase |
| RA | 547,766 | T→G | A95A (GCA→GCC) | purK ← | 5‑(carboxyamino)imidazole ribonucleotide synthase |
| RA | 551,127 | A→G | E354G (GAA→GGA) | cysS → | cysteine‑‑tRNA ligase |
| RA | 559,561 | (A)6→5 | coding (376/633 nt) | fimZ ← | fimbria biosynthesis transcriptional regulator FimZ |
| RA | 594,745 | T→C | D192D (GAT→GAC) | cusA → | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| RA | 643,749 | T→C | T427A (ACC→GCC) | citF ← | citrate lyase subunit alpha |
| RA | 683,001 | T→C | D68G (GAT→GGT) | gltI ← | glutamate/aspartate ABC transporter substrate‑binding protein GltI |
| RA | 688,227 | A→G | L203P (CTG→CCG) | ybeZ ← | PhoH family protein |
| RA | 762,108 | C→T | G203G (GGC→GGT) | mngA → | PTS 2‑O‑a‑mannosyl‑D‑glycerate transporter subunit IIABC |
| RA | 778,272 | T→C | S244S (AGT→AGC) | nadA → | quinolinate synthase NadA |
| RA | 811,694 | T→C | D137G (GAT→GGT) | yvcK ← | uridine diphosphate‑N‑acetylglucosamine‑binding protein YvcK |
| RA | 839,475 | T→C | I488V (ATC→GTC) | ybiO ← | mechanosensitive channel protein |
| RA | 843,818 | Δ1 bp | intergenic (‑358/+46) | glnH ← / ← dps | glutamine ABC transporter substrate‑binding protein GlnH/DNA starvation/stationary phase protection protein Dps |
| RA | 847,270 | A→G | S262P (TCC→CCC) | opgE ← | phosphoethanolamine transferase |
| RA | 903,381 | A→G | S120P (TCG→CCG) | ybjT ← | SDR family oxidoreductase |
| RA | 905,181 | T→C | D442G (GAT→GGT) | poxB ← | ubiquinone‑dependent pyruvate dehydrogenase |
| RA | 982,464 | (T)8→7 | intergenic (‑26/+577) | ompF ← / ← asnS | porin OmpF/asparagine‑‑tRNA ligase |
| RA | 1,080,012 | A→G | Y394C (TAC→TGC) | efeB → | iron uptake transporter deferrochelatase/peroxidase subunit |
| RA | 1,094,108 | A→G | E256G (GAA→GGA) | ghrA → | glyoxylate/hydroxypyruvate reductase GhrA |
| RA | 1,095,349 | Δ1 bp | coding (254/555 nt) | ycdY → | molecular chaperone YcdY |
| RA | 1,097,924 | A→G | V25A (GTA→GCA) | csgE ← | curli production assembly/transport protein CsgE |
| RA | 1,138,424 | T→C | D467G (GAC→GGC) | rne ← | ribonuclease E |
| RA | 1,148,053 | G→T | S220I (AGC→ATC) | fabF → | beta‑ketoacyl‑ACP synthase II |
| RA | 1,239,612 | A→G | H124H (CAT→CAC) | ycgR ← | flagellar brake protein |
| RA | 1,239,827 | G→T | L53M (CTG→ATG) | ycgR ← | flagellar brake protein |
| RA | 1,245,651 | A→G | V215A (GTC→GCC) | dhaK ← | dihydroxyacetone kinase subunit DhaK |
| RA | 1,254,550 | T→C | intergenic (+25/+30) | ychH → / ← dauA | stress‑induced protein YchH/C4‑dicarboxylic acid transporter DauA |
| RA | 1,279,258 | A→G | I67V (ATC→GTC) | narH → | nitrate reductase subunit beta |
| RA | 1,293,696 | A→C | intergenic (‑119/‑274) | adhE ← / → ychE | bifunctional acetaldehyde‑CoA/alcohol dehydrogenase/protein YchT |
| RA | 1,295,255 | A→C | intergenic (‑100/‑184) | BW25113_RS25865 ← / → oppA | hypothetical protein/oligopeptide ABC transporter substrate‑binding protein OppA |
| RA | 1,296,392 | A→G | A318A (GCA→GCG) | oppA → | oligopeptide ABC transporter substrate‑binding protein OppA |
| RA | 1,333,464 | A→G | intergenic (‑47/‑123) | ribA ← / → pgpB | GTP cyclohydrolase II/phosphatidylglycerophosphatase B |
| RA | 1,339,195 | G→A | A602V (GCG→GTG) | pdeR ← | cyclic di‑GMP phosphodiesterase |
| RA | 1,351,156 | T→C | D71G (GAT→GGT) | sapA ← | peptide ABC transporter substrate‑binding protein SapA |
| RA | 1,357,220 | A→G | D74G (GAC→GGC) | puuC → | aldehyde dehydrogenase PuuC |
| RA | 1,367,676 | T→C | D66D (GAT→GAC) | ycjO → | sugar ABC transporter permease |
| RA | 1,373,311 | A→C | T391P (ACG→CCG) | ycjT → | kojibiose phosphorylase |
| RA | 1,391,832 | C→T | L71L (CTG→TTG) | ynaJ → | DUF2534 family protein |
| RA | 1,472,006 | A→G | G43G (GGA→GGG) | ynbA → | CDP‑alcohol phosphatidyltransferase family protein |
| RA | 1,480,218 | T→C | D967D (GAT→GAC) | hrpA → | ATP‑dependent RNA helicase HrpA |
| RA | 1,503,813 | G→T | V17F (GTT→TTT) | hicB → | type II toxin‑antitoxin system antitoxin HicB |
| RA | 1,506,265 | A→G | K119E (AAA→GAA) | ydcS → | ABC transporter substrate‑binding protein |
| RA | 1,528,286 | G→A | T2T (ACG→ACA) | nhoA → | N‑hydroxyarylamine O‑acetyltransferase |
| RA | 1,535,292 | T→C | E519G (GAA→GGA) | narZ ← | nitrate reductase Z subunit alpha |
| RA | 1,551,234 | T→C | I118T (ATC→ACC) | osmC → | peroxiredoxin OsmC |
| RA | 1,606,026 | A→G | pseudogene (125/987 nt) | dgcF ← | GGDEF domain‑containing protein |
| RA | 1,612,612 | A→C | V185G (GTG→GGG) | marC ← | NAAT family transporter MarC |
| RA | 1,614,132 | A→G | D101G (GAT→GGT) | marA → | MDR efflux pump AcrAB transcriptional activator MarA |
| RA | 1,615,927 | (T)5→4 | coding (339/1188 nt) | ydeE → | efflux MFS transporter YdeE |
| RA | 1,624,359 | T→C | E271G (GAA→GGA) | ydfI ← | mannitol dehydrogenase family protein |
| RA | 1,632,977 | (A)8→7 | intergenic (‑53/+310) | cspI ← / ← rzpQ | cold shock protein CspI/DUF2514 domain‑containing protein |
| RA | 1,651,047 | A→G | V223A (GTC→GCC) | ynfC ← | YnfC family lipoprotein |
| RA | 1,657,277 | T→C | S11P (TCC→CCC) | dmsB → | dimethylsulfoxide reductase subunit B |
| RA | 1,657,602 | A→G | E119G (GAA→GGA) | dmsB → | dimethylsulfoxide reductase subunit B |
| RA | 1,678,966 | A→G | I151V (ATC→GTC) | tus → | DNA replication terminus site‑binding protein |
| RA | 1,688,059 | G→A | A154A (GCC→GCT) | uidB ← | glucuronide transporter |
| RA | 1,699,521 | G→A | T5T (ACG→ACA) | ydgK → | DUF2569 domain‑containing protein |
| RA | 1,709,042 | A→G | N137D (AAC→GAC) | gstA → | glutathione transferase GstA |
| RA | 1,721,950 | A→C | P345P (CCA→CCC) | nemA → | N‑ethylmaleimide reductase |
| RA | 1,740,776 | T→C | noncoding (4/77 nt) | BW25113_RS08720 → | tRNA‑Val |
| RA | 1,741,262 | A→G | *102W (TGA→TGG) | ydhR → | monooxygenase |
| RA | 1,751,148 | A→G | A398A (GCA→GCG) | pykF → | pyruvate kinase PykF |
| RA | 1,769,167 | (A)5→4 | coding (225/759 nt) | aroD → | type I 3‑dehydroquinate dehydratase |
| RA | 1,782,562 | (T)7→8 | intergenic (+27/‑130) | ppsR → / → aroH | posphoenolpyruvate synthetase regulatory kinase/phosphorylase PpsR/3‑deoxy‑7‑phosphoheptulonate synthase AroH |
| RA | 1,794,866 | C→T | A10A (GCG→GCA) | infC ← | translation initiation factor IF‑3 |
| RA | 1,794,884 | T→C | G4G (GGA→GGG) | infC ← | translation initiation factor IF‑3 |
| RA | 1,799,314 | A→G | intergenic (+64/‑108) | espL1 → / → BW25113_RS09005 | type III secretion system effector EspL1/hypothetical protein |
| RA | 1,803,183 | T→C | D103G (GAT→GGT) | yniB ← | YniB family protein |
| RA | 1,840,050 | T→C | S390G (AGT→GGT) | topB ← | DNA topoisomerase III |
| RA | 1,876,783 | A→G | R205R (CGA→CGG) | dmlA → | multifunctional D‑malate/3‑isopropylmalate/tartarate dehydrogenase |
| RA | 1,880,952 | A→G | E284G (GAA→GGA) | yeaX → | carnitine monooxygenase subunit YeaX |
| RA | 1,889,775 | C→T | R238R (CGC→CGT) | pabB → | aminodeoxychorismate synthase component 1 |
| RA | 1,906,562 | A→G | I91T (ATC→ACC) | htpX ← | protease HtpX |
| RA | 1,912,667 | A→T | M301L (ATG→TTG) | yebT → | lipid‑binding membrane homeostasis protein YebT |
| RA | 1,912,750 | T→C | D328D (GAT→GAC) | yebT → | lipid‑binding membrane homeostasis protein YebT |
| RA | 1,914,076 | T→G | G770G (GGT→GGG) | yebT → | lipid‑binding membrane homeostasis protein YebT |
| RA | 1,932,672 | A→G | E256G (GAA→GGA) | pyk → | pyruvate kinase |
| RA | 1,937,480 | A→C | T188P (ACC→CCC) | znuC → | zinc ABC transporter ATP‑binding protein ZnuC |
| RA | 1,937,544 | T→C | L209P (CTG→CCG) | znuC → | zinc ABC transporter ATP‑binding protein ZnuC |
| RA | 1,963,824 | A→G | V473A (GTC→GCC) | tap ← | methyl‑accepting chemotaxis protein IV |
| RA | 1,972,691 | A→G | intergenic (‑237/‑543) | flhD ← / → uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| RA | 2,052,997 | T→C | M111V (ATG→GTG) | yeeO ← | toxic metabolite efflux MATE transporter YeeO |
| RA | 2,117,136 | A→T | I289N (ATC→AAC) | cpsB ← | mannose‑1‑phosphate guanyltransferase |
| RA | 2,148,643 | A→G | T383A (ACC→GCC) | mdtA → | multidrug efflux RND transporter subunit MdtA |
| RA | 2,173,405 | A→G | E369G (GAA→GGA) | yegT → | nucleoside permease |
| RA | 2,192,420 | A→G | pseudogene (2468/3796 nt) | BW25113_RS25680 → | WGR and DUF4132 domain‑containing protein |
| RA | 2,236,596 | A→C | V179G (GTG→GGG) | folE ← | GTP cyclohydrolase I FolE |
| RA | 2,241,916 | A→G | G32G (GGT→GGC) | lysP ← | lysine‑specific permease |
| RA | 2,263,024 | (A)6→5 | coding (692/714 nt) | lpxT → | Kdo(2)‑lipid A phosphotransferase |
| MC JC | 2,399,465 | Δ7 bp | coding (650‑656/939 nt) | lrhA ← | transcriptional regulator LrhA |
| RA | 2,413,360 | A→G | V202A (GTC→GCC) | yfcF ← | glutathione transferase |
| RA | 2,418,915 | T→A | I161F (ATC→TTC) | hisQ ← | histidine ABC transporter permease HisQ |
| RA | 2,426,064 | A→G | S120P (TCC→CCC) | folC ← | bifunctional tetrahydrofolate synthase/dihydrofolate synthase |
| RA | 2,432,392 | A→G | I322V (ATT→GTT) | flk → | flagella biosynthesis regulator Flk |
| RA | 2,435,568 | Δ1 bp | coding (326/2007 nt) | mnmC → | bifunctional tRNA (5‑methylaminomethyl‑2‑thiouridine)(34)‑methyltransferase MnmD/FAD‑dependent 5‑carboxymethylaminomethyl‑2‑thiouridine(34) oxidoreductase MnmC |
| RA | 2,446,677 | T→C | pseudogene (1804/2646 nt) | yfcU ← | fimbrial usher protein YfcU |
| RA | 2,484,883 | T→G | T183P (ACG→CCG) | oxc ← | oxalyl‑CoA decarboxylase |
| RA | 2,485,462 | A→G | intergenic (‑33/+21) | oxc ← / ← frc | oxalyl‑CoA decarboxylase/formyl‑CoA transferase |
| RA | 2,500,004 | T→C | G36G (GGA→GGG) | ypdF ← | aminopeptidase |
| RA | 2,520,662 | T→C | S120P (TCA→CCA) | yfeH → | bile acid:sodium symporter |
| RA | 2,557,422 | T→C | D28D (GAT→GAC) | BW25113_RS12770 → | hypothetical protein |
| RA | 2,559,856 | T→C | I130V (ATC→GTC) | eutA ← | ethanolamine ammonia‑lyase reactivating factor EutA |
| RA | 2,621,216 | A→G | I361T (ATC→ACC) | pdeF ← | cyclic‑guanylate‑specific phosphodiesterase PdeF |
| RA | 2,649,892 | A→G | intergenic (‑175/+3) | pepB ← / ← iscX | aminopeptidase PepB/Fe‑S cluster assembly protein IscX |
| RA | 2,684,441 | (A)5→4 | coding (17/1428 nt) | qseE ← | two component system sensor histidine kinase QseE/GlrK |
| RA | 2,695,236 | T→C | D198G (GAC→GGC) | recO ← | DNA repair protein RecO |
| RA | 2,734,303 | A→G | T69T (ACT→ACC) | aroF ← | 3‑deoxy‑7‑phosphoheptulonate synthase AroF |
| RA | 2,744,967 | A→G | I260V (ATT→GTT) | nadK → | NAD(+) kinase |
| RA | 2,768,477 | T→C | intergenic (+97/‑514) | BW25113_RS13770 → / → BW25113_RS24190 | hypothetical protein/DUF905 domain‑containing protein |
| RA | 2,787,427 | T→C | intergenic (+53/‑185) | gabT → / → gabP | 4‑aminobutyrate‑‑2‑oxoglutarate transaminase/GABA permease |
| RA | 2,795,453 | C→T | G249G (GGC→GGT) | nrdE → | class 1b ribonucleoside‑diphosphate reductase subunit alpha |
| RA | 2,834,040 | A→G | K386K (AAA→AAG) | ascF → | PTS cellobiose/arbutin/salicin transporter subunit IIBC |
| RA | 2,851,528 | T→C | T359T (ACT→ACC) | mutS → | DNA mismatch repair protein MutS |
| RA | 2,862,116 | T→C | intergenic (‑4/+136) | nlpD ← / ← pcm | murein hydrolase activator NlpD/protein‑L‑isoaspartate O‑methyltransferase |
| RA | 2,940,916 | T→C | noncoding (61/77 nt) | BW25113_RS14640 → | tRNA‑Met |
| RA | 2,982,682 | (A)8→7 | coding (20/483 nt) | BW25113_RS14815 → | hypothetical protein |
| RA | 2,991,336 | T→C | pseudogene (852/1137 nt) | BW25113_RS14890 ← | glycoside hydrolase family 15 protein |
| RA | 3,000,381 | T→G | V253G (GTC→GGC) | ygeW → | knotted carbamoyltransferase YgeW |
| RA | 3,014,062 | A→G | D55G (GAC→GGC) | ygfM → | molybdopterin‑dependent oxidoreductase FAD‑binding subunit |
| RA | 3,035,080 | C→T | P137S (CCT→TCT) | ygfZ → | tRNA‑modifying protein YgfZ |
| RA | 3,097,142 | T→G | G257G (GGT→GGG) | mutY → | A/G‑specific adenine glycosylase |
| RA | 3,260,970 | T→C | intergenic (+13/‑243) | tdcR → / → BW25113_RS16190 | transcriptional activator TdcR/hypothetical protein |
| RA | 3,335,202 | A→C | H193P (CAC→CCC) | kdsD → | arabinose‑5‑phosphate isomerase KdsD |
| RA | 3,339,127 | A→G | Q351R (CAG→CGG) | rpoN → | RNA polymerase factor sigma‑54 |
| RA | 3,345,818 | T→C | G189G (GGA→GGG) | arcB ← | aerobic respiration two‑component sensor histidine kinase ArcB |
| RA | 3,355,069 | A→G | T179A (ACC→GCC) | gltF → | DUF1120 domain‑containing protein |
| RA | 3,401,936 | T→C | F324S (TTC→TCC) | panF → | sodium/pantothenate symporter |
| RA | 3,450,720 | T→C | S329P (TCC→CCC) | gspD → | type II secretion system secretin GspD |
| RA | 3,454,146 | Δ1 bp | coding (971/1197 nt) | gspF → | type II secretion system inner membrane protein GspF |
| RA | 3,471,902 | A→G | intergenic (‑46/+49) | slyD ← / ← yheV | peptidylprolyl isomerase/YheV family putative metal‑binding protein |
| RA | 3,504,746 | G→A | G12G (GGC→GGT) | yhfY ← | PRD domain protein |
| RA | 3,520,900 | T→C | I358T (ATC→ACC) | igaA → | intracellular growth attenuator protein IgaA |
| RA | 3,527,973 | T→C | M419V (ATG→GTG) | envZ ← | two‑component system sensor histidine kinase EnvZ |
| RA | 3,552,176 | T→C | S184P (TCC→CCC) | rtcR → | DNA‑binding transcriptional regulator RtcR |
| RA | 3,596,637 | A→G | S323P (TCG→CCG) | ftsY ← | signal recognition particle‑docking protein FtsY |
| RA | 3,625,150 | T→C | R267R (AGA→AGG) | yhiJ ← | YhiJ/YhiL family protein |
| RA | 3,660,711 | T→C | D77G (GAT→GGT) | gadA ← | glutamate decarboxylase |
| RA | 3,680,898 | T→C | R546G (AGA→GGA) | bcsC ← | cellulose synthase complex outer membrane protein BcsC |
| RA | 3,737,651 | A→G | intergenic (+81/‑37) | yiaL → / → yiaM | YhcH/YjgK/YiaL family protein/2,3‑diketo‑L‑gulonate TRAP transporter small permease YiaM |
| RA | 3,743,001 | C→T | A137V (GCG→GTG) | sgbU → | L‑ribulose‑5‑phosphate 3‑epimerase |
| RA | 3,786,139 | T→C | intergenic (‑228/+47) | kbl ← / ← yibB | glycine C‑acetyltransferase/protein YibB |
| RA | 3,810,692 | T→A | D219E (GAT→GAA) | yicC → | YicC family protein |
| RA | 3,875,083 | A→G | V200A (GTG→GCG) | dnaN ← | DNA polymerase III subunit beta |
| RA | 3,879,837 | C→T | P468S (CCG→TCG) | yidC → | membrane protein insertase YidC |
| RA | 3,926,018 | T→C | L448P (CTG→CCG) | kup → | low affinity potassium transporter Kup |
| RA | 3,958,917 | (T)8→7 | coding (74/1266 nt) | rhlB ← | ATP‑dependent RNA helicase RhlB |
| RA | 3,964,256 | T→C | V255A (GTC→GCC) | wecB → | UDP‑N‑acetylglucosamine 2‑epimerase (non‑hydrolyzing) |
| RA | 3,971,768 | A→G | E295G (GAA→GGA) | rffT → | TDP‑N‑acetylfucosamine:lipid II N‑acetylfucosaminyltransferase |
| RA | 3,980,918 | (T)5→4 | coding (325/1197 nt) | hemY ← | protoheme IX biogenesis protein HemY |
| RA | 3,997,421 | T→C | T40A (ACG→GCG) | rarD ← | EamA family transporter RarD |
| RA | 4,011,393 | A→G | D234G (GAC→GGC) | rmuC → | DNA recombination protein RmuC |
| RA | 4,014,046 | T→C | V154A (GTC→GCC) | ubiB → | ubiquinone biosynthesis regulatory protein kinase UbiB |
| RA | 4,028,476 | A→G | E170G (GAA→GGA) | hemG → | menaquinone‑dependent protoporphyrinogen IX dehydrogenase |
| RA | 4,039,082 | T→C | E294G (GAA→GGA) | yihG ← | acyltransferase |
| RA | 4,091,711 | (G)5→4 | coding (94/984 nt) | kdgT → | 2‑keto‑3‑deoxygluconate transporter |
| RA | 4,096,618 | T→C | G74G (GGT→GGC) | fieF → | CDF family cation‑efflux transporter FieF |
| RA | 4,134,706 | T→C | S262P (TCC→CCC) | pflD → | formate C‑acetyltransferase |
| RA | 4,136,644 | T→C | T153T (ACT→ACC) | pflC → | [formate‑C‑acetyltransferase]‑activating enzyme |
| RA | 4,168,262 | A→G | intergenic (+46/‑113) | nusG → / → rplK | transcription termination/antitermination protein NusG/50S ribosomal protein L11 |
| RA | 4,194,831 | A→C | G343G (GGT→GGG) | purD ← | phosphoribosylamine‑‑glycine ligase |
| RA | 4,211,733 | T→C | E228G (GAA→GGA) | espL4 ← | type III secretion system effector EspL4 |
| RA | 4,220,940 | A→G | E220G (GAA→GGA) | rluF → | 23S rRNA pseudouridine(2604) synthase RluF |
| RA | 4,221,148 | G→A | G289G (GGG→GGA) | rluF → | 23S rRNA pseudouridine(2604) synthase RluF |
| RA | 4,233,053 | A→G | F131S (TTC→TCC) | malG ← | maltose ABC transporter permease MalG |
| RA | 4,248,506 | A→G | R261R (CGA→CGG) | dinF → | MATE family efflux transporter DinF |
| RA | 4,264,658 | (A)6→5 | intergenic (+69/+30) | ssb1 → / ← yjcB | single‑stranded DNA‑binding protein SSB1/YjcB family protein |
| RA | 4,278,646 | A→C | T319P (ACC→CCC) | nrfA → | ammonia‑forming nitrite reductase cytochrome c552 subunit |
| RA | 4,279,722 | C→T | L184F (CTT→TTT) | nrfB → | cytochrome c nitrite reductase pentaheme subunit |
| RA | 4,293,463 | T→C | D155G (GAC→GGC) | mdtN ← | multidrug efflux transporter periplasmic adaptor subunit MdtN |
| RA | 4,299,745 | (A)6→5 | coding (1053/1533 nt) | alsA ← | D‑allose ABC transporter ATP‑binding protein AlsA |
| RA | 4,325,912 | T→A | I313F (ATT→TTT) | adiC ← | arginine/agmatine antiporter |
| RA | 4,329,995 | A→G | I115T (ATT→ACT) | adiA ← | arginine decarboxylase |
| RA | 4,334,519 | T→C | I445T (ATC→ACC) | melB → | melibiose:sodium transporter MelB |
| RA | 4,347,351 | T→G | T362P (ACC→CCC) | cadA ← | lysine decarboxylase CadA |
| RA | 4,379,477 | T→C | E234G (GAA→GGA) | asd ← | archaetidylserine decarboxylase |
| RA | 4,413,422 | A→G | S254G (AGC→GGC) | ulaE → | L‑ribulose‑5‑phosphate 3‑epimerase UlaE |
| RA | 4,423,096 | A→G | V249A (GTT→GCT) | qorB ← | NAD(P)H:quinone oxidoreductase |
| RA | 4,471,160 | T→C | D832G (GAT→GGT) | valS ← | valine‑‑tRNA ligase |
| RA | 4,474,928 | T→A | I281F (ATC→TTC) | pepA ← | leucyl aminopeptidase |
| RA | 4,482,153 | T→C | I64V (ATC→GTC) | idnT ← | gnt‑II system L‑idonate transporter |
| RA | 4,482,400 | (G)6→7 | intergenic (‑58/+4) | idnT ← / ← idnO | gnt‑II system L‑idonate transporter/gluconate 5‑dehydrogenase |
| RA | 4,491,710 | A→G | intergenic (+304/+210) | BW25113_RS24825 → / ← insG | transposase domain‑containing protein/IS4‑like element IS4 family transposase |
| RA | 4,504,618 | T→C | D626G (GAT→GGT) | fecA ← | Fe(3+) dicitrate transport protein FecA |
| RA | 4,534,634 | A→G | S172G (AGC→GGC) | fimC → | type 1 fimbria chaperone FimC |
| RA | 4,536,840 | A→G | E643G (GAA→GGA) | fimD → | fimbrial usher FimD |
| RA | 4,548,194 | Δ1 bp | coding (1150/1173 nt) | iadA ← | beta‑aspartyl‑peptidase |
| RA | 4,590,291 | T→C | I168V (ATC→GTC) | dnaC ← | DNA replication protein DnaC |
| RA | 4,595,668 | A→G | G16G (GGA→GGG) | yjjZ → | DUF1435 domain‑containing protein |
| RA | 4,596,032 | (G)8→9 | noncoding (72/87 nt) | BW25113_RS22750 ← | tRNA‑Leu |
| RA | 4,616,816 | T→C | V363A (GTC→GCC) | radA → | DNA repair protein RadA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NZ_CP009273 | 235082 | 235120 | 39 | 2 [1] | [1] 2 | BW25113_RS01095 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 295819 | 295819 | 1 | 2 [0] | [0] 2 | paoC | aldehyde oxidoreductase molybdenum‑binding subunit PaoC |
| * | * | ÷ | NZ_CP009273 | 356976 | 357575 | 600 | 2 [1] | [1] 2 | [lacA] | [lacA] |
| * | * | ÷ | NZ_CP009273 | 396692 | 396756 | 65 | 2 [0] | [1] 2 | BW25113_RS25915/iraP | hypothetical protein/anti‑adapter protein IraP |
| * | * | ÷ | NZ_CP009273 | 564255 | 564315 | 61 | 3 [0] | [1] 2 | [BW25113_RS25485] | [BW25113_RS25485] |
| * | * | ÷ | NZ_CP009273 | 576035 | 576049 | 15 | 2 [1] | [1] 3 | ylcI/nohD | YlcI/YnfO family protein/DNA‑packaging protein |
| * | * | ÷ | NZ_CP009273 | 578974 | 579073 | 100 | 2 [1] | [1] 2 | BW25113_RS26085/appY | tail fiber assembly protein/DNA‑binding transcriptional activator AppY |
| * | * | ÷ | NZ_CP009273 | 632127 | 632192 | 66 | 3 [1] | [1] 4 | [ybdO] | [ybdO] |
| * | * | ÷ | NZ_CP009273 | 647552 | 647623 | 72 | 2 [1] | [0] 2 | citC/dpiB | [citrate (pro‑3S)‑lyase] ligase/sensor histidine kinase DpiB |
| * | * | ÷ | NZ_CP009273 | 651722 | 651734 | 13 | 4 [1] | [0] 2 | dcuC/pagP | anaerobic C4‑dicarboxylate transporter DcuC/lipid IV(A) palmitoyltransferase PagP |
| * | * | ÷ | NZ_CP009273 | 703688 | 703759 | 72 | 2 [0] | [1] 3 | glnS/chiP | glutamine‑‑tRNA ligase/chitoporin |
| * | * | ÷ | NZ_CP009273 | 731644 | 731654 | 11 | 2 [1] | [0] 2 | BW25113_RS03640 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 731723 | 731731 | 9 | 2 [0] | [0] 2 | BW25113_RS03640/ybfQ | hypothetical protein/ISAs1 family transposase |
| * | * | ÷ | NZ_CP009273 | 803692 | 803699 | 8 | 2 [0] | [0] 3 | bioA | adenosylmethionine‑‑8‑amino‑7‑oxononanoate transaminase |
| * | * | ÷ | NZ_CP009273 | 902995 | 903072 | 78 | 2 [1] | [1] 2 | ybjT | SDR family oxidoreductase |
| * | * | ÷ | NZ_CP009273 | 973608 | 973614 | 7 | 2 [1] | [1] 3 | mukB | chromosome partition protein MukB |
| * | * | ÷ | NZ_CP009273 | 1032569 | 1032591 | 23 | 2 [1] | [1] 2 | hyaF | hydrogenase expression/formation protein |
| * | * | ÷ | NZ_CP009273 | 1083247 | 1083253 | 7 | 2 [0] | [1] 2 | pgaC | poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine synthase |
| * | * | ÷ | NZ_CP009273 | 1098794 | 1098906 | 113 | 2 [1] | [1] 3 | csgD/csgB | biofilm master transcriptional regulator CsgD/curli minor subunit CsgB |
| * | * | ÷ | NZ_CP009273 | 1158161 | 1158163 | 3 | 5 [0] | [1] 2 | lpoB | penicillin‑binding protein activator LpoB |
| * | * | ÷ | NZ_CP009273 | 1164376 | 1164451 | 76 | 3 [1] | [0] 2 | comR/bhsA | TetR family copper‑responsive transcriptional repressor ComR/multiple stress resistance protein BhsA |
| * | * | ÷ | NZ_CP009273 | 1192481 | 1192533 | 53 | 2 [1] | [1] 3 | ymfD | class I SAM‑dependent methyltransferase |
| * | * | ÷ | NZ_CP009273 | 1193083 | 1193094 | 12 | 3 [0] | [1] 4 | BW25113_RS05920 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 1205722 | 1205801 | 80 | 2 [1] | [1] 3 | pinE/mcrA | site‑specific DNA recombinase/5‑methylcytosine‑specific endonuclease McrA |
| * | * | ÷ | NZ_CP009273 | 1207539 | 1207585 | 47 | 2 [1] | [1] 2 | iraM/BW25113_RS25985 | anti‑adapter protein IraM/protein YmgK |
| * | * | ÷ | NZ_CP009273 | 1214433 | 1214442 | 10 | 2 [0] | [0] 2 | [BW25113_RS06070] | [BW25113_RS06070] |
| * | * | ÷ | NZ_CP009273 | 1261670 | 1261701 | 32 | 2 [1] | [1] 3 | prmC | peptide chain release factor N(5)‑glutamine methyltransferase |
| * | * | ÷ | NZ_CP009273 | 1287849 | 1287907 | 59 | 3 [1] | [1] 2 | galU/hns | UTP‑‑glucose‑1‑phosphate uridylyltransferase GalU/DNA‑binding transcriptional regulator H‑NS |
| * | * | ÷ | NZ_CP009273 | 1314770 | 1314858 | 89 | 2 [1] | [1] 2 | trpD | bifunctional anthranilate synthase glutamate amidotransferase component TrpG/anthranilate phosphoribosyltransferase TrpD |
| * | * | ÷ | NZ_CP009273 | 1329154 | 1329164 | 11 | 5 [0] | [1] 2 | cysB/ymiA | HTH‑type transcriptional regulator CysB/YmiA family putative membrane protein |
| * | * | ÷ | NZ_CP009273 | 1366072 | 1366097 | 26 | 4 [1] | [1] 2 | ycjM | glucosylglycerate phosphorylase |
| * | * | ÷ | NZ_CP009273 | 1419270 | 1419298 | 29 | 2 [1] | [1] 2 | trkG | Trk system potassium transporter TrkG |
| * | * | ÷ | NZ_CP009273 | 1459415 | 1459480 | 66 | 3 [1] | [1] 4 | [BW25113_RS25580] | [BW25113_RS25580] |
| * | * | ÷ | NZ_CP009273 | 1748980 | 1749083 | 104 | 2 [1] | [1] 2 | ydhY/fumD | ferredoxin‑like protein/fumarate hydratase FumD |
| * | * | ÷ | NZ_CP009273 | 1772965 | 1773041 | 77 | 2 [1] | [1] 2 | ydiP | AraC family transcriptional regulator |
| * | * | ÷ | NZ_CP009273 | 2050824 | 2050848 | 25 | 2 [1] | [1] 2 | yeeN | YebC/PmpR family DNA‑binding transcriptional regulator |
| * | * | ÷ | NZ_CP009273 | 2051046 | 2051081 | 36 | 2 [0] | [1] 2 | [yeeN] | [yeeN] |
| * | * | ÷ | NZ_CP009273 | 2078985 | 2079002 | 18 | 2 [0] | [1] 3 | yeeE | thiosulfate utilization transporter TsuA/YeeE |
| * | * | ÷ | NZ_CP009273 | 2157889 | 2157901 | 13 | 2 [1] | [1] 2 | baeR | two‑component system response regulator BaeR |
| * | * | ÷ | NZ_CP009273 | 2211840 | 2211895 | 56 | 2 [1] | [1] 3 | yehY | glycine betaine ABC transporter permease YehY |
| * | * | ÷ | NZ_CP009273 | 2300310 | 2300381 | 72 | 2 [1] | [1] 4 | mqo/yojI | malate dehydrogenase (quinone)/microcin J25 efflux ABC transporter YojI |
| * | * | ÷ | NZ_CP009273 | 2463170 | 2463217 | 48 | 2 [1] | [1] 2 | BW25113_RS12270 | hypothetical protein |
| * | * | ÷ | NZ_CP009273 | 2898900 | 2898949 | 50 | 2 [1] | [1] 2 | [BW25113_RS14445] | [BW25113_RS14445] |
| * | * | ÷ | NZ_CP009273 | 3165523 | 3165533 | 11 | 4 [1] | [1] 4 | ygiZ | DUF2645 family protein |
| * | * | ÷ | NZ_CP009273 | 3262656 | 3262657 | 2 | 2 [0] | [0] 2 | yhaC | YhaC family protein |
| * | * | ÷ | NZ_CP009273 | 3576017 | 3576032 | 16 | 2 [1] | [1] 2 | hcp | Hcp1 family type VI secretion system effector |
| * | * | ÷ | NZ_CP009273 | 3647059 | 3647117 | 59 | 4 [1] | [1] 2 | BW25113_RS18165/slp | hypothetical protein/outer membrane lipoprotein Slp |
| * | * | ÷ | NZ_CP009273 | 3763096 | 3763127 | 32 | 2 [0] | [0] 2 | BW25113_RS26240 | Imm57 family immunity protein |
| * | * | ÷ | NZ_CP009273 | 3763181 | 3763183 | 3 | 2 [0] | [0] 2 | BW25113_RS26240/yibH | Imm57 family immunity protein/HlyD family secretion protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 360104 = | NA (NA) | 21 (1.180) | 16/166 | 0.2 | NA | intergenic (‑35/+251) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein |
| ? | NZ_CP009273 | = 360286 | NA (NA) | intergenic (‑217/+69) | lacZ/BW25113_RS23320 | beta‑galactosidase/relaxase/mobilization nuclease domain‑containing protein | |||||
| * | ? | NZ_CP009273 | = 1391494 | NA (NA) | 7 (0.400) | 3/164 | 1.5 | 78.0% | intergenic (+145/‑128) | BW25113_RS06980/ynaJ | IS5‑like element IS5 family transposase/DUF2534 family protein |
| ? | NZ_CP009273 | 1972747 = | 2 (0.110) | intergenic (‑293/‑487) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC | |||||
| * | ? | NZ_CP009273 | = 1972751 | 0 (0.000) | 37 (2.080) | 20/166 | 0.1 | 100% | intergenic (‑297/‑483) | flhD/uspC | flagellar transcriptional regulator FlhD/universal stress protein UspC |
| ? | NZ_CP009273 | = 2283592 | NA (NA) | intergenic (‑68/‑387) | BW25113_RS11435/narP | IS5‑like element IS5 family transposase/nitrate/nitrite response regulator protein NarP | |||||
| * | ? | NZ_CP009273 | 4532499 = | 3 (0.170) | 6 (0.380) | 5/148 | 1.0 | 43.4% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 13 (0.820) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||