mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| JC JC | 57,276 | IS2 (+) +5 bp | intergenic (‑167/‑84) | lptD ← / → djlA | lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA |
| RA | 68,465 | C→T | Q528Q (CAG→CAA) | araB ← | ribulokinase |
| RA | 71,134 | G→A | G250S (GGT→AGT) | araC → | DNA‑binding transcriptional dual regulator AraC |
| RA | 74,996 | G→A | T162I (ACA→ATA) | thiB ← | thiamine ABC transporter periplasmic binding protein |
| RA | 154,417 | G→A | S337F (TCC→TTC) | htrE ← | putative fimbrial usher protein HtrE |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 276,792 | G→A | E26E (GAG→GAA) | mmuM → | homocysteine S‑methyltransferase |
| RA | 283,868 | G→A | C223Y (TGT→TAT) | yagF → | D‑xylonate dehydratase |
| RA | 286,109 | G→A | A239T (GCG→ACG) | yagG → | putative D‑xylonate transporter YagG |
| RA | 286,492 | G→A | L366L (CTG→CTA) | yagG → | putative D‑xylonate transporter YagG |
| RA | 294,754 | C→T | G16R (GGA→AGA) | yagM ← | protein YagM |
| RA | 296,801 | G→A | A99V (GCC→GTC) | intF ← | putative phage integrase |
| RA | 344,389 | G→A | A72T (GCT→ACT) | yahL → | uncharacterized protein YahL |
| RA | 345,165 | G→A | intergenic (+174/‑239) | yahL → / → yahM | uncharacterized protein YahL/uncharacterized protein YahM |
| RA | 383,799 | G→A | A46V (GCG→GTG) | yaiP ← | putative glucosyltransferase |
| RA | 384,894 | G→A | intergenic (‑278/‑338) | yaiS ← / → tauA | putative deacetylase YaiS/taurine ABC transporter periplasmic binding protein |
| RA | 467,730 | G→A | D107N (GAC→AAC) | cof → | HMP‑PP phosphatase |
| RA | 557,635 | A→T | L36Q (CTG→CAG) | folD ← | bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase |
| RA | 563,802 | G→A | G158D (GGT→GAT) | sfmF → | putative fimbrial protein SfmF |
| JC JC | 568,449 | IS2 (–) +5 bp | coding (135‑139/333 nt) | emrE → | multidrug/betaine/choline efflux transporter EmrE |
| RA | 603,168 | C→T | Q404* (CAG→TAG) | pheP → | phenylalanine:H(+) symporter PheP |
| RA | 606,147 | G→A | A18V (GCT→GTT) | ybdJ ← | DUF1158 domain‑containing protein YbdJ |
| RA | 615,785 | C→T | R543R (CGC→CGT) | entF → | apo‑serine activating enzyme |
| RA | 616,477 | C→T | P774L (CCG→CTG) | entF → | apo‑serine activating enzyme |
| RA | 627,548 | G→A | L493L (CTG→CTA) | entE → | 2,3‑dihydroxybenzoate‑AMP ligase |
| RA | 628,224 | G→A | A177A (GCG→GCA) | entB → | enterobactin synthase component B |
| RA | 629,709 | G→A | G137E (GGA→GAA) | entH → | proofreading thioesterase in enterobactin biosynthesis |
| RA | 631,633 | G→A | W580* (TGG→TGA) | cstA → | pyruvate transporter CstA |
| RA | 671,691 | C→T | D166N (GAT→AAT) | lptE ← | lipopolysaccharide assembly protein LptE |
| RA | 672,395 | C→T | E797K (GAA→AAA) | leuS ← | leucine‑‑tRNA ligase |
| RA | 677,723 | C→T | C103C (TGC→TGT) | djlB → | J domain‑containing protein DjlB |
| RA | 678,229 | C→T | A272V (GCA→GTA) | djlB → | J domain‑containing protein DjlB |
| RA | 680,493 | G→A | Q94Q (CAG→CAA) | djlC → | co‑chaperone DjlC |
| RA | 690,588 | C→T | A98A (GCG→GCA) | lnt ← | apolipoprotein N‑acyltransferase |
| RA | 690,713 | C→T | A57T (GCC→ACC) | lnt ← | apolipoprotein N‑acyltransferase |
| RA | 694,841 | C→T | E39K (GAA→AAA) | miaB ← | isopentenyl‑adenosine A37 tRNA methylthiolase |
| RA | 723,625 | C→T | E264K (GAA→AAA) | kdpD ← | sensor histidine kinase KdpD |
| RA | 754,777 | C→T | R2H (CGT→CAT) | ybgU ← | protein YbgU |
| RA | 757,445 | C→T | C513C (TGC→TGT) | sdhA → | succinate:quinone oxidoreductase, FAD binding protein |
| RA | 757,538 | C→T | D544D (GAC→GAT) | sdhA → | succinate:quinone oxidoreductase, FAD binding protein |
| RA | 759,605 | C→T | G300G (GGC→GGT) | sucA → | subunit of E1(0) component of 2‑oxoglutarate dehydrogenase |
| RA | 778,541 | C→T | L268L (CTG→TTG) | tolB → | Tol‑Pal system periplasmic protein TolB |
| RA | 778,850 | C→T | L371L (CTG→TTG) | tolB → | Tol‑Pal system periplasmic protein TolB |
| RA | 779,360 | C→T | N98N (AAC→AAT) | pal → | peptidoglycan‑associated outer membrane lipoprotein Pal |
| RA | 779,557 | C→T | S164F (TCC→TTC) | pal → | peptidoglycan‑associated outer membrane lipoprotein Pal |
| RA | 794,007 | C→T | G213D (GGC→GAC) | modE ← | DNA‑binding transcriptional dual regulator ModE |
| RA | 797,058 | C→T | P169S (CCT→TCT) | modC → | molybdate ABC transporter ATP binding subunit |
| RA | 801,374 | C→T | L206L (CTG→TTG) | ybhH → | putative isomerase YbhH |
| RA | 813,075 | C→T | intergenic (+128/‑451) | bioD → / → uvrB | dethiobiotin synthetase/UvrABC excision nuclease subunit B |
| RA | 814,630 | C→T | P369S (CCA→TCA) | uvrB → | UvrABC excision nuclease subunit B |
| RA | 817,542 | C→T | R167C (CGT→TGT) | moaA → | GTP 3',8'‑cyclase |
| RA | 828,572 | C→T | G137D (GGC→GAC) | ybhF ← | ABC exporter ATP binding subunit YbhF |
| RA | 839,883 | G→A | S550F (TCT→TTT) | fiu ← | iron catecholate outer membrane transporter Fiu |
| MC JC | 878,329 | Δ29,995 bp | [bssR]–[ltaE] | 36 genes [bssR], yliI, gstB, dacC, deoR, ybjG, mdfA, ybjH, ybjI, ybjJ, rcdA, rybB, ybjL, ybjM, grxA, ybjC, nfsA, rimK, ybjN, potF, potG, potH, potI, ybjO, rlmC, artJ, artM, artQ, artI, artP, ybjP, ybjQ, amiD, ybjS, ybjT, [ltaE] |
|
| RA | 969,142 | A→G | V259V (GTA→GTG) | lpxK → | tetraacyldisaccharide 4'‑kinase |
| RA | 987,152 | G→T | intergenic (‑170/+433) | ompF ← / ← asnS | outer membrane porin F/asparagine‑‑tRNA ligase |
| RA | 1,095,492 | G→A | intergenic (‑55/‑351) | insE4 ← / → ycdU | IS3 element protein InsE/uncharacterized protein YcdU |
| JC JC | 1,105,376 | IS2 (–) +5 bp | intergenic (+83/‑34) | csgC → / → ymdA | curlin chaperone/uncharacterized protein YmdA |
| RA | 1,290,881 | C→T | L214F (CTT→TTT) | rssB → | regulator of RpoS |
| MC JC | 1,294,035 | Δ141 bp | [tdk] | [tdk] | |
| RA | 1,337,394 | A→G | S522G (AGC→GGC) | acnA → | aconitate hydratase 1 |
| RA | 1,344,613 | G→A | intergenic (‑4/‑34) | yciZ ← / → ymiD | UPF0509 family protein YciZ/protein YmiD |
| RA | 1,346,924 | G→A | intergenic (+24/+54) | ymiB → / ← rnb | putative protein YmiB/RNase II |
| RA | 1,358,227 | G→A | R321C (CGT→TGT) | puuP ← | putrescine:H(+) symporter PuuP |
| RA | 1,359,428 | G→A | intergenic (‑87/+62) | ymjE ← / ← puuA | protein YmjE/glutamate‑putrescine ligase |
| RA | 1,359,466 | G→A | intergenic (‑125/+24) | ymjE ← / ← puuA | protein YmjE/glutamate‑putrescine ligase |
| RA | 1,394,087 | G→A | P287P (CCG→CCA) | mppA → | murein tripeptide ABC transporter periplasmic binding protein |
| RA | 1,406,261 | G→A | V95M (GTG→ATG) | smrA → | DNA endonuclease SmrA |
| RA | 1,408,820 | G→A | Q257Q (CAG→CAA) | zntB → | Zn(2(+)):H(+) symporter |
| RA | 1,409,541 | C→A | P11T (CCT→ACT) | dbpA → | ATP‑dependent RNA helicase DbpA |
| RA | 1,494,388 | Δ1 bp | coding (684/924 nt) | ydcI ← | DNA‑binding transcriptional dual regulator YdcI |
| RA | 1,517,508 | G→T | V40V (GTG→GTT) | ortT → | orphan toxin OrtT |
| RA | 1,582,293 | C→T | G78R (GGA→AGA) | ydeN ← | putative sulfatase YdeN |
| RA | 1,650,209 | C→T | intergenic (+224/+2519) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| RA | 1,652,331 | T→C | intergenic (+2346/+397) | ydfD → / ← ynfP | lysis protein/protein YnfP |
| RA | 1,665,014 | C→T | A170V (GCA→GTA) | dmsD → | redox enzyme maturation protein DmsD |
| RA | 1,667,887 | Δ1 bp | coding (678/1221 nt) | mlc ← | DNA‑binding transcriptional repressor Mlc |
| RA | 1,669,453 | G→A | A47V (GCC→GTC) | ynfL ← | putative DNA‑binding transcriptional regulator YnfL |
| RA | 1,670,201 | G→A | G168D (GGC→GAC) | ynfM → | putative transporter YnfM |
| RA | 1,698,593 | G→A | T196T (ACC→ACT) | malI ← | DNA‑binding transcriptional repressor MalI |
| RA | 1,707,546 | C→T | L210F (CTT→TTT) | rsxC → | SoxR [2Fe‑2S] reducing system protein RsxC |
| RA | 1,708,108 | A→G | Y397C (TAC→TGC) | rsxC → | SoxR [2Fe‑2S] reducing system protein RsxC |
| RA | 1,712,731 | C→T | intergenic (+573/‑38) | nth → / → dtpA | endonuclease III/dipeptide/tripeptide:H(+) symporter DtpA |
| RA | 1,715,932 | C→T | intergenic (‑43/+16) | pdxY ← / ← tyrS | pyridoxal kinase 2/tyrosine‑‑tRNA ligase |
| RA | 1,726,995 | C→T | L113L (CTG→TTG) | nemA → | N‑ethylmaleimide reductase |
| RA | 1,734,541 | C→T | A36V (GCT→GTT) | mepH → | peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase MepH |
| RA | 1,744,751 | Δ1 bp | coding (1295/1374 nt) | mdtK → | multidrug efflux pump MdtK |
| RA | 1,751,127 | C→T | A200T (GCT→ACT) | ydhW ← | uncharacterized protein YdhW |
| RA | 1,753,839 | C→T | intergenic (‑9/+12) | ydhV ← / ← ydhY | putative oxidoreductase YdhV/putative 4Fe‑4S ferredoxin‑like protein YdhY |
| RA | 1,761,385 | C→T | S136N (AGC→AAC) | sufD ← | Fe‑S cluster scaffold complex subunit SufD |
| RA | 1,786,384 | C→T | V243V (GTG→GTA) | ppsA ← | phosphoenolpyruvate synthetase |
| RA | 1,789,682 | C→T | P24S (CCT→TCT) | ydiE → | PF10636 family protein YdiE |
| JC JC | 1,792,772 | IS2 (–) +5 bp | intergenic (‑41/+33) | nlpC ← / ← btuD | NlpC/P60 family lipoprotein NlpC/vitamin B12 ABC transporter ATP binding subunit |
| RA | 1,794,855 | C→T | G100R (GGG→AGG) | btuC ← | vitamin B12 ABC transporter membrane subunit |
| RA | 1,794,878 | C→T | G92D (GGC→GAC) | btuC ← | vitamin B12 ABC transporter membrane subunit |
| RA | 1,810,624 | C→T | I138I (ATC→ATT) | ydjM → | inner membrane protein YdjM |
| RA | 1,852,006 | C→T | C40C (TGC→TGT) | pncA → | nicotinamidase |
| RA | 1,861,743 | C→T | D78N (GAT→AAT) | yeaC ← | DUF1315 domain‑containing protein YeaC |
| RA | 1,866,085 | C→T | G130S (GGC→AGC) | mipA ← | MltA‑interacting protein |
| RA | 1,871,049 | C→T | S222F (TCT→TTT) | cdgI → | putative c‑di‑GMP binding protein CdgI |
| RA | 1,874,299 | C→T | intergenic (‑117/‑53) | yoaI ← / → yeaL | protein YoaI/DUF441 domain‑containing inner membrane protein YeaL |
| RA | 1,876,474 | C→T | L268F (CTT→TTT) | nimT → | 2‑nitroimidazole exporter |
| RA | 1,876,658 | C→T | S329F (TCT→TTT) | nimT → | 2‑nitroimidazole exporter |
| RA | 1,877,096 | C→T | T63I (ACC→ATC) | yeaO → | DUF488 domain‑containing protein YeaO |
| RA | 1,883,309 | C→T | A41V (GCC→GTC) | yeaV → | putative transporter YeaV |
| RA | 1,893,087 | C→T | G50D (GGC→GAC) | yoaA ← | putative ATP‑dependent 5' to 3' DNA helicase |
| RA | 1,978,243 | G→T | intergenic (‑46/+275) | flhD ← / ← insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB |
| RA | 2,003,264 | C→T | E115K (GAA→AAA) | fliC ← | flagellar filament structural protein |
| RA | 2,026,760 | C→T | A420T (GCT→ACT) | dgcQ ← | diguanylate cyclase DgcQ |
| RA | 2,032,423 | G→A | V219V (GTC→GTT) | yedJ ← | putative HD superfamily phosphohydrolase YedJ |
| RA | 2,072,358 | G→A | G274S (GGC→AGC) | flu → | self recognizing antigen 43 (Ag43) autotransporter |
| RA | 2,095,666 | G→A | G181D (GGC→GAC) | hisA → | 1‑(5‑phosphoribosyl)‑5‑[(5‑ phosphoribosylamino)methylideneamino]imidazole‑4‑ carboxamide isomerase |
| RA | 2,098,971 | C→T | D215N (GAT→AAT) | ugd ← | UDP‑glucose 6‑dehydrogenase |
| RA | 2,187,922 | C→T | A165T (GCA→ACA) | yehA ← | putative fimbrial adhesin YehA |
| RA | 2,226,317 | G→A | V173M (GTG→ATG) | yohD → | DedA family protein YohD |
| RA | 2,226,323 | G→A | G175S (GGC→AGC) | yohD → | DedA family protein YohD |
| RA | 2,242,121 | A→G | S283P (TCG→CCG) | yeiB ← | DUF418 domain‑containing protein YeiB |
| JC JC | 2,269,876 | IS5 (+) +4 bp | intergenic (+309/‑100) | lpxT → / → mepS | lipid A‑core phosphotransferase/peptidoglycan endopeptidase/peptidoglycan L,D‑carboxypeptidase |
| RA | 2,291,951 | T→C | I154V (ATT→GTT) | ccmH ← | holocytochrome c synthase CcmH component |
| JC JC | 2,319,850 | IS2 (+) +5 bp | coding (23‑27/2850 nt) | rcsC ← | histidine kinase RcsC |
| RA | 2,323,892 | C→T | A149V (GCC→GTC) | atoD → | acetyl‑CoA:acetoacetyl‑CoA transferase subunit alpha |
| RA | 2,363,025 | C→T | L203L (CTG→CTA) | yfaY ← | IPR008135 CinA family protein YfaY |
| RA | 2,397,444 | G→A | Q908* (CAA→TAA) | nuoG ← | NADH:quinone oxidoreductase subunit G |
| JC JC | 2,406,780 | IS1 (–) +8 bp | intergenic (‑139/‑774) | lrhA ← / → alaA | DNA‑binding transcriptional dual regulator LrhA/glutamate‑‑pyruvate aminotransferase AlaA |
| RA | 2,515,819 | T→C | T672A (ACG→GCG) | pdeA ← | putative c‑di‑GMP phosphodiesterase PdeA |
| MC JC | 2,558,699 | Δ6,790 bp | intZ–[eutA] | intZ, yffL, yffM, yffN, yffO, yffP, yffQ, yffR, yffS, [eutA] | |
| RA | 2,603,942 | C→T | S32S (TCC→TCT) | hyfC → | hydrogenase 4 component C |
| JC JC | 2,666,074 | IS1 (+) +9 bp | coding (640‑648/1281 nt) | csiE → | stationary phase‑inducible protein CsiE |
| RA | 2,686,812 | G→C | Q326H (CAG→CAC) | hmp → | nitric oxide dioxygenase |
| RA | 2,864,407 | C→T | L58L (CTG→TTG) | ygbM → | putative 2‑oxo‑tetronate isomerase YgbM |
| RA | 2,887,602 | C→T | R237R (AGG→AGA) | cysH ← | phosphoadenosine phosphosulfate reductase |
| RA | 2,899,684 | C→T | G197D (GGC→GAC) | ygcW ← | putative deoxygluconate dehydrogenase |
| RA | 3,162,858 | C→T | Q208Q (CAG→CAA) | plsC ← | 1‑acylglycerol‑3‑phosphate O‑acyltransferase PlsC |
| RA | 3,268,970 | A→G | T186A (ACA→GCA) | yhaC → | uncharacterized protein YhaC |
| RA | 3,273,707 | C→T | V401M (GTG→ATG) | garP ← | galactarate/D‑glucarate transporter GarP |
| RA | 3,398,259 | G→A | S40S (AGC→AGT) | yhdE ← | nucleoside triphosphate pyrophosphatase YhdE |
| RA | 3,411,854 | G→A | V68M (GTG→ATG) | yhdJ → | DNA adenine methyltransferase |
| RA | 3,429,941 | C→T | G28D (GGT→GAT) | yrdB ← | DUF1488 domain‑containing protein YrdB |
| RA | 3,431,615 | C→T | Q116Q (CAG→CAA) | yrdD ← | putative DNA topoisomerase |
| RA | 3,434,376 | C→T | L55L (CTG→TTG) | fmt → | 10‑formyltetrahydrofolate:L‑methionyl‑tRNA(fMet) N‑formyltransferase |
| RA | 3,436,817 | C→T | R100R (CGC→CGT) | trkA → | NAD‑binding component of Trk potassium transporters |
| RA | 3,438,489 | C→T | S54N (AGT→AAT) | arfA ← | alternative ribosome‑rescue factor A |
| RA | 3,438,497 | C→T | W51* (TGG→TGA) | arfA ← | alternative ribosome‑rescue factor A |
| RA | 3,441,328 | C→T | Q116Q (CAG→CAA) | rpsD ← | 30S ribosomal subunit protein S4 |
| RA | 3,441,859 | C→T | K80K (AAG→AAA) | rpsK ← | 30S ribosomal subunit protein S11 |
| RA | 3,442,095 | C→T | A2T (GCA→ACA) | rpsK ← | 30S ribosomal subunit protein S11 |
| RA | 3,442,307 | C→T | T55T (ACG→ACA) | rpsM ← | 30S ribosomal subunit protein S13 |
| RA | 3,444,895 | C→T | R112H (CGC→CAC) | rpsE ← | 30S ribosomal subunit protein S5 |
| RA | 3,453,500 | C→T | intergenic (‑230/+8) | rpsJ ← / ← gspB | 30S ribosomal subunit protein S10/putative general secretion pathway protein B |
| RA | 3,456,444 | C→T | A23V (GCT→GTT) | gspD → | Type II secretion system protein GspD |
| RA | 3,473,353 | C→T | E54E (GAG→GAA) | fusA ← | elongation factor G |
| RA | 3,486,205 | C→A | T29K (ACG→AAG) | crp → | DNA‑binding transcriptional dual regulator CRP |
| RA | 3,487,627 | C→T | R279R (CGC→CGT) | yhfK → | putative transporter YhfK |
| RA | 3,498,336 | C→T | A170V (GCC→GTC) | cysG → | siroheme synthase |
| RA | 3,498,660 | C→T | P278L (CCC→CTC) | cysG → | siroheme synthase |
| RA | 3,500,505 | C→T | A199V (GCG→GTG) | frlA → | fructoselysine/psicoselysine transporter |
| RA | 3,500,603 | C→T | L232L (CTG→TTG) | frlA → | fructoselysine/psicoselysine transporter |
| RA | 3,505,212 | C→T | S270N (AGC→AAC) | yhfS ← | putative aminotransferase YhfS |
| RA | 3,507,706 | C→T | intergenic (‑5/+6) | yhfU ← / ← php | DUF2620 domain‑containing protein YhfU/putative hydrolase |
| RA | 3,508,356 | C→T | A79T (GCC→ACC) | php ← | putative hydrolase |
| RA | 3,513,332 | C→T | E103K (GAA→AAA) | trpS ← | tryptophan‑‑tRNA ligase |
| RA | 3,513,380 | C→T | E87K (GAA→AAA) | trpS ← | tryptophan‑‑tRNA ligase |
| RA | 3,519,188 | C→T | intergenic (‑124/+277) | aroK ← / ← hofQ | shikimate kinase 1/DNA utilization protein HofQ |
| RA | 3,521,516 | C→T | G153R (GGA→AGA) | hofN ← | DNA utilization protein HofN |
| RA | 3,527,435 | C→T | L323F (CTT→TTT) | igaA → | inner membrane protein IgaA |
| RA | 3,560,455 | +G | intergenic (+589/+167) | rtcR → / ← glpG | DNA‑binding transcriptional activator RtcR/rhomboid protease GlpG |
| MC JC | 3,682,261 | Δ34 bp | coding (1154‑1187/1287 nt) | dctA ← | C4 dicarboxylate/orotate:H(+) symporter |
| JC JC | 3,737,137 | IS2 (+) +5 bp | coding (37‑41/825 nt) | bax ← | putative glycoside hydrolase Bax |
| RA | 3,894,178 | G→A | G100S (GGC→AGC) | yieE → | putative phosphopantetheinyl transferase |
| RA | 4,025,904 | T→C | V306A (GTG→GCG) | ubiD → | 3‑octaprenyl‑4‑hydroxybenzoate decarboxylase |
| RA | 4,069,443 | C→T | intergenic (‑167/+32) | yihQ ← / ← yihR | sulfoquinovosidase/putative sulfoquinovose mutarotase YihR |
| RA | 4,072,562 | C→T | M30I (ATG→ATA) | yihT ← | 6‑deoxy‑6‑sulfofructose‑1‑phosphate aldolase |
| RA | 4,072,783 | C→T | R263R (CGG→CGA) | yihU ← | 3‑sulfolactaldehyde reductase |
| JC JC | 4,123,923 | IS2 (–) +5 bp | coding (530‑534/1026 nt) | cytR ← | DNA‑binding transcriptional repressor CytR |
| JC JC | 4,135,180 | IS2 (–) +5 bp | coding (1346‑1350/2181 nt) | katG → | catalase/hydroperoxidase HPI |
| RA | 4,213,597 | G→A | A122T (GCA→ACA) | yjaA → | stress response protein |
| RA | 4,213,776 | G→A | F116F (TTC→TTT) | yjaB ← | peptidyl‑lysine N‑acetyltransferase YjaB |
| RA | 4,214,904 | G→A | E209K (GAA→AAA) | metA → | homoserine O‑succinyltransferase |
| RA | 4,219,936 | G→A | Q447Q (CAG→CAA) | aceK → | isocitrate dehydrogenase kinase/phosphatase |
| RA | 4,233,540 | A→G | intergenic (‑307/‑218) | lysC ← / → pgi | aspartate kinase III/glucose‑6‑phosphate isomerase |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,306,168 | C→T | G144S (GGC→AGC) | yjcS ← | linear primary‑alkylsulfatase |
| RA | 4,306,177 | C→T | G141S (GGC→AGC) | yjcS ← | linear primary‑alkylsulfatase |
| RA | 4,306,896 | G→A | P302S (CCA→TCA) | alsK ← | D‑allose kinase |
| RA | 4,307,202 | G→A | Q200* (CAG→TAG) | alsK ← | D‑allose kinase |
| RA | 4,308,804 | G→A | F222F (TTC→TTT) | alsC ← | D‑allose ABC transporter membrane subunit |
| RA | 4,309,387 | G→A | T28I (ACC→ATC) | alsC ← | D‑allose ABC transporter membrane subunit |
| RA | 4,313,713 | G→A | D122N (GAT→AAT) | rpiB → | allose‑6‑phosphate isomerase/ribose‑5‑phosphate isomerase B |
| RA | 4,314,514 | G→A | P197S (CCG→TCG) | phnP ← | 5‑phospho‑alpha‑D‑ribosyl 1,2‑cyclic phosphate phosphodiesterase |
| RA | 4,316,393 | G→A | R276C (CGC→TGC) | phnM ← | RPnTP hydrolase |
| RA | 4,316,417 | G→A | L268L (CTG→TTG) | phnM ← | RPnTP hydrolase |
| RA | 4,316,467 | G→A | P251L (CCC→CTC) | phnM ← | RPnTP hydrolase |
| RA | 4,316,569 | G→A | A217V (GCC→GTC) | phnM ← | RPnTP hydrolase |
| RA | 4,317,998 | G→A | intergenic (‑103/+8) | phnL ← / ← phnK | methylphosphonate degradation complex subunit PhnL/carbon‑phosphorus lyase subunit PhnK |
| RA | 4,319,543 | G→A | R22C (CGC→TGC) | phnJ ← | carbon‑phosphorus lyase core complex subunit PhnJ |
| RA | 4,320,013 | G→A | R217R (CGC→CGT) | phnI ← | carbon‑phosphorus lyase core complex subunit PhnI |
| RA | 4,320,398 | G→A | A89V (GCG→GTG) | phnI ← | carbon‑phosphorus lyase core complex subunit PhnI |
| RA | 4,321,220 | G→A | P10S (CCC→TCC) | phnH ← | carbon‑phosphorus lyase core complex subunit PhnH |
| RA | 4,325,598 | G→A | C48C (TGC→TGT) | yjdN ← | PF06983 family protein YjdN |
| RA | 4,326,570 | G→A | G55G (GGC→GGT) | yjdM ← | zinc ribbon domain‑containing protein YjdM |
| RA | 4,330,772 | G→A | D91N (GAT→AAT) | proP → | osmolyte:H(+) symporter ProP |
| RA | 4,330,799 | G→A | A100T (GCT→ACT) | proP → | osmolyte:H(+) symporter ProP |
| RA | 4,330,931 | G→A | E144K (GAA→AAA) | proP → | osmolyte:H(+) symporter ProP |
| RA | 4,338,118 | G→A | intergenic (‑189/+136) | adiY ← / ← adiA | DNA‑binding transcriptional activator AdiY/arginine decarboxylase, degradative |
| RA | 4,338,465 | G→A | P686L (CCA→CTA) | adiA ← | arginine decarboxylase, degradative |
| RA | 4,339,929 | C→T | G198D (GGT→GAT) | adiA ← | arginine decarboxylase, degradative |
| RA | 4,342,135 | C→T | A75A (GCC→GCT) | melA → | alpha‑galactosidase |
| RA | 4,342,451 | G→A | E181K (GAA→AAA) | melA → | alpha‑galactosidase |
| RA | 4,342,582 | G→A | P224P (CCG→CCA) | melA → | alpha‑galactosidase |
| RA | 4,342,595 | G→A | A229T (GCT→ACT) | melA → | alpha‑galactosidase |
| RA | 4,344,255 | G→A | R296H (CGC→CAC) | melB → | melibiose:H(+)/Na(+)/Li(+) symporter |
| RA | 4,345,751 | G→A | L526L (CTG→TTG) | fumB ← | fumarase B |
| RA | 4,346,714 | G→A | P205S (CCC→TCC) | fumB ← | fumarase B |
| RA | 4,347,037 | G→A | A97V (GCC→GTC) | fumB ← | fumarase B |
| RA | 4,351,790 | G→A | intergenic (‑128/‑53) | dcuS ← / → yjdI | sensor histidine kinase DcuS/PF06902 family protein YjdI |
| RA | 4,369,682 | G→A | A244V (GCC→GTC) | yjeH ← | L‑methionine/branched chain amino acid exporter |
| RA | 4,380,354 | C→T | R55H (CGC→CAC) | frdB ← | fumarate reductase iron‑sulfur protein |
| RA | 4,381,240 | C→T | G360D (GGC→GAC) | frdA ← | fumarate reductase flavoprotein subunit |
| RA | 4,381,966 | C→T | G118D (GGC→GAC) | frdA ← | fumarate reductase flavoprotein subunit |
| RA | 4,385,905 | C→T | L68F (CTC→TTC) | yjeO → | DUF2645 domain‑containing inner membrane protein YjeO |
| RA | 4,386,061 | C→T | A1104T (GCG→ACG) | mscM ← | miniconductance mechanosensitive channel MscM |
| RA | 4,387,120 | C→T | E751K (GAA→AAA) | mscM ← | miniconductance mechanosensitive channel MscM |
| RA | 4,387,757 | C→T | T538T (ACG→ACA) | mscM ← | miniconductance mechanosensitive channel MscM |
| RA | 4,388,794 | C→T | A193T (GCG→ACG) | mscM ← | miniconductance mechanosensitive channel MscM |
| RA | 4,392,516 | G→A | noncoding (45/76 nt) | glyX → | tRNA‑Gly |
| RA | 4,397,180 | C→T | R372R (CGC→CGT) | amiB → | N‑acetylmuramoyl‑L‑alanine amidase B |
| RA | 4,403,803 | C→T | T168T (ACC→ACT) | hflC → | regulator of FtsH protease |
| RA | 4,405,622 | C→T | D312D (GAC→GAT) | purA → | adenylosuccinate synthetase |
| RA | 4,408,175 | C→T | L508L (CTG→TTG) | rnr → | RNase R |
| RA | 4,408,700 | C→T | R683C (CGC→TGC) | rnr → | RNase R |
| RA | 4,411,260 | C→T | intergenic (+9/‑42) | yjfJ → / → yjfK | PspA family protein YjfJ/DUF2491 domain‑containing protein YjfK |
| RA | 4,421,451 | A→G | K20R (AAG→AGG) | ulaB → | L‑ascorbate specific PTS enzyme IIB component |
| RA | 4,424,407 | C→T | intergenic (+21/+109) | ulaF → / ← yjfY | L‑ribulose‑5‑phosphate 4‑epimerase UlaF/DUF1471 domain‑containing protein YjfY |
| RA | 4,425,291 | C→T | H58H (CAC→CAT) | rpsF → | 30S ribosomal subunit protein S6 |
| RA | 4,429,997 | C→T | S45F (TCT→TTT) | cycA → | D‑serine/alanine/glycine/:H(+)symporter |
| RA | 4,430,193 | C→T | C110C (TGC→TGT) | cycA → | D‑serine/alanine/glycine/:H(+)symporter |
| RA | 4,430,615 | C→T | S251F (TCC→TTC) | cycA → | D‑serine/alanine/glycine/:H(+)symporter |
| RA | 4,434,299 | C→T | L63F (CTT→TTT) | ytfH → | putative transcriptional regulator YtfH |
| RA | 4,437,808 | C→T | I34I (ATC→ATT) | ytfI → | protein YtfI |
| RA | 4,440,203 | C→T | G338D (GGT→GAT) | paeA ← | putative cadaverine/putrescine exporter |
| RA | 4,441,026 | C→T | G64S (GGT→AGT) | paeA ← | putative cadaverine/putrescine exporter |
| RA | 4,499,513 | C→T | intergenic (+13/‑1747) | insD6 → / → yjgZ | IS2 insertion element protein InsB/uncharacterized protein YjgZ |
| RA | 4,521,815 | A→G | V69A (GTT→GCT) | yjhF ← | putative transporter YjhF |
| RA | 4,540,522 | C→T | intergenic (‑1021/‑435) | nanC ← / → fimB | N‑acetylneuraminate outer membrane channel/Type 1 fimbriae regulatory protein FimB |
| RA | 4,542,683 | Δ1 bp | intergenic (+50/‑432) | fimE → / → fimA | regulator for fimA/type 1 fimbriae major subunit |
| RA | 4,542,990 | C→T | intergenic (+357/‑125) | fimE → / → fimA | regulator for fimA/type 1 fimbriae major subunit |
| RA | 4,545,140 | C→T | C15C (TGC→TGT) | fimD → | type I fimbriae usher protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 164506 | 164643 | 138 | 2 [0] | [1] 2 | [hrpB] | [hrpB] |
| * | * | ÷ | NC_000913 | 807321 | 807360 | 40 | 2 [1] | [1] 2 | ybhC/ybhB | outer membrane lipoprotein YbhC/putative kinase inhibitor |
| * | * | ÷ | NC_000913 | 1168591 | 1168623 | 33 | 2 [1] | [0] 2 | comR | DNA‑binding transcriptional repressor ComR |
| * | * | ÷ | NC_000913 | 1196268 | 1211429 | 15162 | 2 [1] | [1] 2 | [icd]–mcrA | [icd],C0293,ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,ymfN,ymfR,beeE,ymfQ,ycfK,tfaP,tfaE,pinE,mcrA |
| * | * | ÷ | NC_000913 | 1304999 | 1305061 | 63 | 2 [1] | [1] 2 | oppD | murein tripeptide ABC transporter/oligopeptide ABC transporter ATP binding subunit OppD |
| * | * | ÷ | NC_000913 | 1311151 | 1311312 | 162 | 2 [1] | [1] 3 | tonB | Ton complex subunit TonB |
| * | * | ÷ | NC_000913 | 1395315 | 1395332 | 18 | 2 [1] | [1] 3 | ynaI | small conductance mechanosensitive channel YnaI |
| * | * | ÷ | NC_000913 | 1978495 | 1979270–1978504 | 10–776 | 10 [0] | [0] 15 | insB5–insA5 | insB5,insA5 |
| * | * | ÷ | NC_000913 | 2271785 | 2271843 | 59 | 2 [1] | [1] 2 | pdeN | putative c‑di‑GMP phosphodiesterase PdeN |
| * | * | ÷ | NC_000913 | 2626138 | 2626176 | 39 | 2 [1] | [1] 2 | ppx | exopolyphosphatase |
| * | * | ÷ | NC_000913 | 3239607 | 3239663 | 57 | 2 [1] | [1] 3 | alx/sstT | putative membrane‑bound redox modulator Alx/serine/threonine:Na(+) symporter |
| * | * | ÷ | NC_000913 | 3423895–3424233 | 3424444–3424239 | 7–550 | 2 [0] | [1] 2 | rrlD | 23S ribosomal RNA |
| * | * | ÷ | NC_000913 | 3781054 | 3781090 | 37 | 2 [1] | [1] 2 | lldD/trmL | L‑lactate dehydrogenase/tRNA (cytidine/uridine‑2'‑O)‑ribose methyltransferase |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 381260 = | NA (NA) | 10 (0.700) | 9/310 | 0.3 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382183 | NA (NA) | noncoding (924/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 382179 = | NA (NA) | 9 (0.640) | 7/306 | 0.4 | NA | noncoding (920/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 382590 | NA (NA) | noncoding (1331/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 15 (1.090) | 14/302 | 0.1 | 100% | intergenic (+253/‑69) | ychE/insH21 | MarC family putative inner membrane protein YchE/IS5 family transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 family transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | = 1397238 | NA (NA) | 10 (0.700) | 8/310 | 0.4 | 100% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 1978494 | 0 (0.000) | intergenic (‑297/+24) | flhD/insB5 | DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 14 (0.990) | 13/310 | 0.1 | 100% | intergenic (‑56/‑482) | insA5/uspC | IS1 family protein InsA/universal stress protein C |
| ? | NC_000913 | = 2102947 | NA (NA) | pseudogene (443/446 nt) | wbbL | interrupted rhamnosyltransferase WbbL | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 14 (0.990) | 10/308 | 0.2 | 93.3% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 4536236 = | 1 (0.070) | intergenic (‑2183/‑361) | topAI/ythB | toxin of the TopAI‑YjhQ toxin‑antitoxin system, TopA inhibitor/protein YthB | |||||
| * | ? | NC_000913 | = 3305910 | 2 (0.140) | 14 (0.990) | 12/308 | 0.1 | 80.0% | intergenic (‑93/+61) | mtr/deaD | tryptophan:H(+) symporter Mtr/ATP‑dependent RNA helicase DeaD |
| ? | NC_000913 | 3306184 = | 5 (0.350) | coding (1677/1890 nt) | deaD | ATP‑dependent RNA helicase DeaD | |||||