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 | 14,011 | T→G | S617A (TCT→GCT) | dnaK → | chaperone Hsp70, with co‑chaperone DnaJ |
| RA | 25,474 | T→G | S90A (TCG→GCG) | lspA → | prolipoprotein signal peptidase (signal peptidase II) |
| RA | 43,187 | T→G | intergenic (+14/‑1) | fixA → / → fixB | anaerobic carnitine reduction putative electron transfer flavoprotein subunit/putative electron transfer flavoprotein, NAD/FAD‑binding domain and ETFP adenine nucleotide‑binding domain‑like protein |
| RA | 75,116 | T→G | Y122S (TAT→TCT) | thiB ← | thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein |
| 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 | 122,070 | A→C | intergenic (‑519/‑22) | aroP ← / → pdhR | aromatic amino acid transporter/pyruvate dehydrogenase complex repressor; autorepressor |
| 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 | 175,540 | T→G | L145W (TTG→TGG) | clcA → | H(+)/Cl(‑) exchange transporter |
| RA | 199,001 | T→G | D358E (GAT→GAG) | bamA → | BamABCDE complex OM biogenesis outer membrane pore‑forming assembly factor |
| RA | 206,867 | A→C | E581A (GAG→GCG) | dnaE → | DNA polymerase III alpha subunit |
| RA | 218,130 | T→G | S216R (AGC→CGC) | proS ← | prolyl‑tRNA synthetase |
| 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 | 344,915 | T→G | I247R (ATA→AGA) | yahL → | uncharacterized protein |
| RA | 388,155 | T→G | S121A (TCG→GCG) | tauD → | taurine dioxygenase, 2‑oxoglutarate‑dependent |
| 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 | 424,279 | A→C | T588P (ACT→CCT) | malZ → | maltodextrin glucosidase |
| RA | 428,252 | T→G | I202M (ATT→ATG) | secD → | SecYEG protein translocase auxillary subunit |
| RA | 431,340 | A→C | I225S (ATC→AGC) | tsx ← | nucleoside channel, receptor of phage T6 and colicin K |
| RA | 480,566 | A→C | L48W (TTG→TGG) | tomB ← | Hha toxicity attenuator; conjugation‑related protein |
| RA | 488,082 | T→G | I516S (ATT→AGT) | mscK → | mechanosensitive channel protein, intermediate conductance, K+ regulated |
| RA | 513,767 | A→C | S398R (AGT→CGT) | ybaT → | putative amino acid transporter |
| RA | 546,173 | T→G | E64A (GAA→GCA) | allD ← | ureidoglycolate dehydrogenase |
| RA | 547,728 | T→G | L350R (CTT→CGT) | fdrA → | putative NAD(P)‑binding acyl‑CoA synthetase |
| 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 | 621,281 | A→C | I303M (ATT→ATG) | fepD ← | ferrienterobactin ABC transporter permease |
| RA | 623,458 | T→G | L387V (TTG→GTG) | entS → | enterobactin exporter, iron‑regulated |
| RA | 716,235 | A→C | pseudogene (363/651 nt) | ybfG ← | pseudogene |
| 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 | 797,813 | A→C | W207G (TGG→GGG) | ybhA ← | pyridoxal phosphate (PLP) phosphatase |
| RA | 825,545 | T→G | V188V (GTA→GTC) | ybhR ← | putative ABC transporter permease |
| RA | 832,388 | T→G | intergenic (+152/+80) | rhlE → / ← ybiA | ATP‑dependent RNA helicase/DUF1768 family protein |
| RA | 846,198 | A→C | F89C (TTC→TGC) | glnQ ← | glutamine transporter subunit |
| RA | 885,494 | A→C | F213C (TTT→TGT) | ybjI ← | 5‑amino‑6‑(5‑phospho‑D‑ribitylamino)uracil phosphatase; pyrimidine phosphatase; riboflavin synthesis |
| RA | 908,807 | A→C | L163R (CTG→CGG) | ltaE ← | L‑allo‑threonine aldolase, PLP‑dependent |
| 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 | 930,957 | A→C | N2K (AAT→AAG) | cydD ← | glutathione/cysteine ABC transporter export permease/ATPase |
| RA | 960,657 | C→T | L132L (CTG→TTG) | ycaL → | putative peptidase‑related chaperone |
| RA | 969,341 | T→G | S326A (TCT→GCT) | lpxK → | lipid A 4'kinase |
| RA | 970,734 | A→C | N21T (AAC→ACC) | ycaR → | peroxide and acid resistance protein, UPF0434 family |
| RA | 1,035,960 | T→G | L64R (CTC→CGC) | hyaD → | hydrogenase 1 maturation protease |
| RA | 1,036,544 | A→C | E64A (GAG→GCG) | hyaE → | putative HyaA chaperone |
| RA | 1,048,134 | A→C | N186K (AAT→AAG) | gfcC ← | putative O‑antigen capsule production periplasmic protein |
| RA | 1,064,004 | T→G | intergenic (‑229/‑32) | cbpA ← / → yccE | DnaK co‑chaperone; curved DNA‑binding protein/uncharacterized protein |
| RA | 1,078,882 | T→G | M1M (ATG→CTG) † | putA ← | fused DNA‑binding transcriptional regulator/proline dehydrogenase/pyrroline‑5‑carboxylate dehydrogenase |
| RA | 1,093,771 | A→C | E299A (GAA→GCA) | ycdT → | diguanylate cyclase, membrane‑anchored |
| 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 | 1,156,452 | T→G | S231A (TCG→GCG) | holB → | DNA polymerase III, delta prime subunit |
| RA | 1,183,048 | T→G | L191F (TTA→TTC) | potC ← | spermidine/putrescine ABC transporter permease |
| RA | 1,224,314 | T→G | N78H (AAC→CAC) | minE ← | cell division topological specificity factor |
| RA | 1,245,298 | T→G | S47A (TCG→GCG) | ycgY → | uncharacterized protein |
| RA | 1,290,933 | T→G | L231R (CTT→CGT) | rssB → | PcnB‑degradosome interaction factor; response regulator |
| RA | 1,294,845 | A→C | pseudogene (148/567 nt) | insZ ← | pseudogene, transposase homolog |
| RA | 1,311,596 | T→G | L170V (TTG→GTG) | tonB → | membrane spanning protein in TonB‑ExbB‑ExbD transport complex |
| RA | 1,335,881 | T→G | D17E (GAT→GAG) | acnA → | aconitate hydratase 1; aconitase A |
| RA | 1,343,516 | A→C | intergenic (‑188/+81) | osmB ← / ← yciT | osmotically and stress inducible lipoprotein/global regulator of transcription; DeoR family |
| RA | 1,438,947 | T→G | E613A (GAA→GCA) | pfo ← | pyruvate‑flavodoxin oxidoreductase |
| RA | 1,479,936 | A→C | N267H (AAC→CAC) | ynbC → | putative esterase |
| RA | 1,494,054 | T→G | S529A (TCT→GCT) | trg → | methyl‑accepting chemotaxis protein III, ribose and galactose sensor receptor |
| RA | 1,494,520 | A→C | N184K (AAT→AAG) | ydcI ← | putative DNA‑binding transcriptional regulator |
| RA | 1,571,816 | T→G | D77A (GAT→GCT) | gadB ← | glutamate decarboxylase B, PLP‑dependent |
| RA | 1,597,634 | A→C | pseudogene (354/3861 nt) | yneO ← | pseudogene, AidA homolog |
| RA | 1,617,428 | A→C | K134T (AAG→ACG) | ydeA → | arabinose efflux transporter, arabinose‑inducible |
| RA | 1,619,743 | A→C | Y57S (TAC→TCC) | marA → | multiple antibiotic resistance transcriptional regulator |
| RA | 1,638,733 | A→C | intergenic (‑66/+297) | cspI ← / ← rzpQ | Qin prophage; cold shock protein/Rz‑like protein, Qin prophage |
| RA | 1,647,986 | A→C | N18T (AAC→ACC) | dicA → | Qin prophage; putative regulator for DicB |
| RA | 1,660,346 | A→C | M760L (ATG→CTG) | ynfE → | putative selenate reductase, periplasmic |
| 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 | 1,716,402 | A→C | F274C (TTC→TGC) | tyrS ← | tyrosyl‑tRNA synthetase |
| 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 | 1,823,297 | T→G | intergenic (+12/‑218) | nadE → / → cho | NAD synthetase, NH3/glutamine‑dependent/endonuclease of nucleotide excision repair |
| RA | 1,830,953 | T→G | N344H (AAT→CAT) | astC ← | succinylornithine transaminase, PLP‑dependent |
| 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 |
| MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
| JC JC | 1,979,486 | IS5 (+) +4 bp | intergenic (‑271/‑264) | insA ← / → uspC | IS1 repressor TnpA/universal stress protein |
| RA | 1,985,983 | T→G | K49T (AAA→ACA) | araF ← | L‑arabinose ABC transporter periplasmic binding protein |
| RA | 1,987,532 | A→C | F76C (TTT→TGT) | yecJ ← | DUF2766 family protein |
| RA | 2,008,526 | A→C | I84L (ATC→CTC) | yedE → | UPF0394 family sulphur transport domain‑containing inner membrane protein |
| RA | 2,019,670 | T→G | I18S (ATT→AGT) | fliL → | flagellar biosynthesis protein |
| RA | 2,024,185 | A→C | N73T (AAT→ACT) | rcsA → | transcriptional regulator of colanic acid capsular biosynthesis |
| 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 | 2,113,790 | T→G | K180Q (AAA→CAA) | wcaN ← | putative regulatory subunit for GalU |
| 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 | 2,152,171 | T→G | E101A (GAA→GCA) | yegK ← | ser/thr phosphatase‑related protein |
| RA | 2,154,851 | T→G | L279R (CTA→CGA) | mdtA → | multidrug efflux system, subunit A |
| RA | 2,164,104 | A→C | Y410S (TAT→TCT) | baeS → | sensory histidine kinase in two‑component regulatory system with BaeR |
| 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 | 2,181,901 | A→C | D269A (GAC→GCC) | yegV → | putative kinase |
| RA | 2,221,860 | T→G | K44Q (AAA→CAA) | bglX ← | beta‑D‑glucoside glucohydrolase, periplasmic |
| 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 | 2,361,733 | A→C | L160R (CTG→CGG) | rhmR ← | putative DNA‑binding transcriptional regulator for the rhm operon |
| RA | 2,373,622 | A→C | intergenic (‑84/+26) | pmrD ← / ← menE | inactive two‑component system connector protein/O‑succinylbenzoate‑CoA ligase |
| RA | 2,387,305 | G→A | P124P (CCG→CCA) | yfbM → | DUF1877 family protein |
| RA | 2,397,296 | A→C | P49P (CCT→CCG) | nuoH ← | NADH:ubiquinone oxidoreductase, membrane subunit H |
| RA | 2,411,252 | A→C | I34S (ATT→AGT) | yfbS ← | putative transporter |
| RA | 2,423,570 | A→C | intergenic (‑31/+166) | yfcI ← / ← hisP | transposase_31 family protein/histidine ABC transporter ATPase |
| RA | 2,424,497 | T→G | K5Q (AAA→CAA) | hisP ← | histidine ABC transporter ATPase |
| RA | 2,483,809 | T→G | L19V (TTA→GTA) | evgA → | response regulator in two‑component regulatory system with EvgS |
| RA | 2,488,822 | A→C | L116R (CTT→CGT) | yfdE ← | acetyl‑CoA:oxalate CoA‑transferase |
| RA | 2,497,996 | T→G | E100D (GAA→GAC) | alaC ← | glutamate‑pyruvate aminotransferase; glutamic‑pyruvic transaminase (GPT); alanine transaminase |
| RA | 2,502,542 | T→G | Q648H (CAA→CAC) | 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 | 2,616,067 | T→G | intergenic (‑186/‑27) | yfgO ← / → bepA | putative UPF0118 family inner membrane permease/OM protein maintenance and assembly metalloprotease and chaperone, periplasmic |
| RA | 2,704,845 | T→G | K155N (AAA→AAC) | lepB ← | leader peptidase (signal peptidase I) |
| RA | 2,717,422 | A→C | V223V (GTA→GTC) | ung → | uracil‑DNA‑glycosylase |
| RA | 2,772,145 | T→G | pseudogene (10/153 nt) | yfjU ← | CP4‑57 prophage; conserved protein;Phage or Prophage Related |
| RA | 2,854,496 | A→C | Q53H (CAA→CAC) | fhlA → | formate hydrogenlyase transcriptional activator |
| 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 | 2,922,239 | T→G | intergenic (‑139/+296) | gudP ← / ← yqcA | putative D‑glucarate transporter/short‑chain flavodoxin, FMN‑binding |
| RA | 2,934,721 | T→G | S163A (TCG→GCG) | fucP → | L‑fucose transporter |
| RA | 2,957,342 | T→G | K515Q (AAG→CAG) | ptrA ← | protease III |
| RA | 2,966,116 | A→C | intergenic (‑79/+72) | lgt ← / ← ptsP | phosphatidylglycerol‑prolipoprotein diacylglyceryl transferase/PEP‑protein phosphotransferase enzyme I; GAF domain containing protein |
| RA | 2,968,180 | T→G | I85I (ATA→ATC) | ptsP ← | PEP‑protein phosphotransferase enzyme I; GAF domain containing protein |
| RA | 2,988,621 | T→G | L40L (CTT→CTG) | yqeI → | putative transcriptional regulator |
| RA | 3,007,340 | A→C | E360A (GAA→GCA) | ygeW → | putative carbamoyltransferase |
| 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 | 3,026,011 | T→G | H82Q (CAT→CAG) | guaD → | guanine deaminase |
| 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 | 3,056,034 | A→C | noncoding (52/183 nt) | ssrS → | 6S RNA inhibits RNA polymerase promoter 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 | 3,095,466 | T→G | L123L (CTT→CTG) | yggS → | UPF0001 family protein, PLP‑binding |
| RA | 3,101,594 | T→G | A10A (GCA→GCC) | yggN ← | DUF2884 family putative periplasmic protein |
| RA | 3,105,513 | T→G | intergenic (+1/‑201) | mltC → / → nupG | membrane‑bound lytic murein transglycosylase C/nucleoside transporter |
| RA | 3,108,760 | A→C | H132Q (CAT→CAG) | speC ← | ornithine decarboxylase, constitutive |
| RA | 3,151,112 | A→C | D44E (GAT→GAG) | exbD ← | membrane spanning protein in TonB‑ExbB‑ExbD complex |
| 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 | 3,180,239 | A→C | K166Q (AAA→CAA) | ygiB → | DUF1190 family protein |
| 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 | 3,207,921 | A→C | E184A (GAA→GCA) | ttdB → | L‑tartrate dehydratase, beta subunit |
| 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 | 3,303,518 | A→C | E24A (GAA→GCA) | yhbW → | putative luciferase‑like monooxygenase |
| RA | 3,334,314 | A→C | Y202S (TAT→TCT) | ispB → | octaprenyl diphosphate synthase |
| RA | 3,363,167 | T→G | L121V (TTA→GTA) | yhcD → | putative outer membrane fimbrial subunit usher protein |
| RA | 3,387,576 | T→G | K205Q (AAA→CAA) | aaeB ← | p‑hydroxybenzoic acid efflux system component |
| RA | 3,397,618 | T→G | I60L (ATT→CTT) | rng ← | ribonuclease G |
| RA | 3,399,779 | A→C | L67R (CTG→CGG) | mreC ← | cell wall structural complex MreBCD transmembrane component MreC |
| RA | 3,444,566 | A→C | F53V (TTC→GTC) | rpmD ← | 50S ribosomal subunit protein L30 |
| RA | 3,461,243 | A→C | E74A (GAA→GCA) | gspG → | pseudopilin, cryptic, general secretion pathway |
| 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 | 3,515,115 | A→C | L267V (TTG→GTG) | dam ← | DNA adenine methyltransferase |
| RA | 3,520,438 | A→C | L89R (CTC→CGC) | hofQ ← | DNA catabolic putative fimbrial transporter |
| RA | 3,539,427 | T→G | S681S (TCT→TCG) | yhgF → | putative transcriptional accessory protein |
| 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 | 3,602,989 | T→G | I419L (ATT→CTT) | ftsY ← | Signal Recognition Particle (SRP) receptor |
| RA | 3,610,025 | A→C | D24A (GAC→GCC) | dcrB → | putative lipoprotein |
| RA | 3,623,709 | T→G | I104S (ATT→AGT) | yhhH → | putative NTF2 fold immunity protein for polymorphic toxin RhsB |
| RA | 3,644,167 | T→G | E339A (GAA→GCA) | prlC ← | oligopeptidase A |
| 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 | 3,698,520 | A→C | T103P (ACC→CCC) | bcsG → | DUF3260 family cellulose production inner membrane protein |
| 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 |
| JC JC | 3,765,971 | IS2 (+) +5 bp | coding (3789‑3793/4134 nt) | rhsA → | Rhs protein with putative toxin 55 domain; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor |
| RA | 3,766,247 | A→C | K1355N (AAA→AAC) | rhsA → | Rhs protein with putative toxin 55 domain; putative polysaccharide synthesis/export protein; putative neighboring cell growth inhibitor |
| RA | 3,790,919 | A→C | L143V (TTA→GTA) | tdh ← | L‑threonine 3‑dehydrogenase, NAD(P)‑binding |
| RA | 3,812,232 | A→C | F110V (TTT→GTT) | yicR ← | UPF0758 family protein |
| 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 | 3,871,503 | A→C | D76E (GAT→GAG) | dgoT ← | D‑galactonate transporter |
| RA | 3,966,875 | T→G | S153S (TCT→TCG) | rho → | transcription termination factor |
| RA | 3,967,461 | A→C | I349L (ATC→CTC) | rho → | transcription termination factor |
| RA | 3,972,452 | A→C | Q398P (CAG→CCG) | wecC → | UDP‑N‑acetyl‑D‑mannosaminuronic acid dehydrogenase |
| RA | 3,988,989 | T→G | A26A (GCA→GCC) | hemX ← | putative uroporphyrinogen III methyltransferase |
| RA | 4,008,222 | A→C | I156L (ATC→CTC) | rhtC → | threonine efflux pump |
| RA | 4,011,824 | T→G | L250R (CTG→CGG) | yigM → | putative inner membrane EamA‑like transporter |
| RA | 4,012,707 | A→C | F37C (TTT→TGT) | metR ← | methionine biosynthesis regulon transcriptional regulator |
| 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 | 4,143,778 | A→C | E52A (GAA→GCA) | frwB → | putative enzyme IIB component of PTS |
| 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 | 4,216,808 | T→G | L444R (CTG→CGG) | aceB → | malate synthase A |
| RA | 4,245,692 | A→C | F243C (TTT→TGT) | malE ← | maltose transporter subunit |
| 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 | 4,313,090 | 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 | 4,331,998 | T→G | D499E (GAT→GAG) | proP → | proline/glycine betaine transporter |
| RA | 4,385,478 | A→C | E29A (GAG→GCG) | yjeN → | uncharacterized protein |
| RA | 4,403,148 | A→C | N371H (AAC→CAC) | hflK → | modulator for HflB protease specific for phage lambda cII repressor |
| RA | 4,452,800 | T→G | I77S (ATC→AGC) | ytfT → | putative sugar ABC transporter permease |
| RA | 4,464,914 | T→G | I423L (ATC→CTC) | treB ← | trehalose‑specific PTS enzyme: IIB and IIC component |
| RA | 4,475,797 | A→C | I121L (ATT→CTT) | yjgL → | SopA‑central‑domain‑like hexapeptide repeat protein |
| RA | 4,476,115 | A→C | N227H (AAT→CAT) | yjgL → | SopA‑central‑domain‑like hexapeptide repeat protein |
| RA | 4,478,193 | T→G | E40A (GAA→GCA) | argI ← | ornithine carbamoyltransferase 1 |
| RA | 4,499,550 | A→C | intergenic (+50/+43) | insD1 → / ← yjgX | IS2 transposase TnpB/pseudogene fragment |
| RA | 4,522,275 | T→G | H607P (CAT→CCT) | yjhG ← | putative dehydratase |
| RA | 4,532,668 | T→G | G172G (GGA→GGC) | yjhP ← | putative methyltransferase |
| RA | 4,548,617 | A→C | L111L (CTA→CTC) | fimG → | minor component of type 1 fimbriae |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423700–3424234 | 3424610–3424238 | 5–911 | 92 [88] | [90] 92 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 257907 | 0 (0.000) | 156 (1.080) | 91/182 | 0.2 | 100% | intergenic (+8/‑769) | crl/crl | pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers/pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers |
| ? | NC_000913 | 258684 = | 0 (0.000) | pseudogene (9/331 nt) | crl | pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers | |||||
| * | ? | NC_000913 | 1207790 = | 53 (0.340) | 94 (0.710) | 65/166 | 1.2 | 73.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 25 (0.190) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 191 (1.270) | 101/190 | 0.1 | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||