mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 | 170,713 | G→T | E47* (GAA→TAA) | fhuD → | iron(III) hydroxamate ABC transporter periplasmic binding protein |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 368,178 | T→C | E81E (GAA→GAG) | mhpR ← | DNA‑binding transcriptional activator MhpR |
| RA | 425,791 | C→A | L261M (CTG→ATG) | queA → | tRNA preQ1(34) S‑adenosylmethionine ribosyltransferase‑isomerase |
| RA | 641,810 | C→A | A20S (GCT→TCT) | uspG ← | universal stress protein G |
| RA | 730,515 | G→T | L311L (CTG→CTT) | rhsC → | rhs element protein RhsC |
| RA | 830,202 | G→T | L148M (CTG→ATG) | cecR ← | DNA‑binding transcriptional dual regulator CecR |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 995,601 | C→A | E130* (GAA→TAA) | ssuD ← | FMNH2‑dependent alkanesulfonate monooxygenase |
| RA | 1,032,930 | G→T | M264I (ATG→ATT) | hyaA → | hydrogenase 1 small subunit |
| RA | 1,158,121 | G→T | A85S (GCC→TCC) | ptsG → | glucose‑specific PTS enzyme IIBC component |
| RA | 1,196,220 | C→T | H366H (CAC→CAT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,232 | C→T | T370T (ACC→ACT) | icd → | isocitrate dehydrogenase |
| RA | 1,196,245 | T→C | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,196,247 | A→G | L375M (TTA→CTG) | icd → | isocitrate dehydrogenase |
| RA | 1,479,363 | G→T | G76W (GGG→TGG) | ynbC → | hydrolase/methyltransferase domain‑containing protein YnbC |
| RA | 1,491,970 | C→A | R34R (CGG→CGT) G54* (GGA→TGA) |
hokB ← mokB ← |
toxin HokB putative regulatory protein MokB |
| RA | 1,504,940 | C→G | V381L (GTG→CTG) | ydcO ← | putative transport protein YdcO |
| RA | 1,612,771 | C→A | E161* (GAA→TAA) | glsB ← | glutaminase 2 |
| RA | 1,620,035 | C→A | S16Y (TCC→TAC) | marB → | multiple antibiotic resistance protein |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,758,712 | G→A | S5F (TCT→TTT) | ldtE ← | L,D‑transpeptidase LdtE |
| RA | 1,823,687 | G→T | R58L (CGC→CTC) | cho → | endonuclease of nucleotide excision repair |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,925,728 | G→T | A97S (GCG→TCG) | yobB → | putative carbon‑nitrogen hydrolase family protein YobB |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,236,912 | C→A | G281V (GGC→GTC) | mglC ← | D‑galactose/methyl‑galactoside ABC transporter membrane subunit |
| RA | 2,715,375 | (T)7→8 | intergenic (‑55/‑48) | yfiE ← / → eamB | putative LysR‑type DNA‑binding transcriptional regulator YfiE/cysteine/O‑acetylserine exporter EamB |
| RA | 2,737,862 | C→A | L40M (CTG→ATG) | pheA → | fused chorismate mutase/prephenate dehydratase |
| RA | 2,776,084 | C→A | R56S (CGC→AGC) | yfjX → | CP4‑57 prophage; putative antirestriction protein |
| RA | 2,781,067 | C→A | G554* (GGA→TGA) | ypjA ← | adhesin‑like autotransporter YpjA |
| RA | 2,869,138 | G→T | R128S (CGT→AGT) | pcm ← | L‑isoaspartate protein carboxylmethyltransferase type II |
| RA | 2,913,347 | G→T | S102* (TCG→TAG) | relA ← | GDP/GTP pyrophosphokinase |
| RA | 2,999,154 | G→T | G246G (GGC→GGA) | ygeR ← | LysM domain‑containing putative peptidase lipoprotein YgeR |
| RA | 3,267,923 | C→T | H24Y (CAC→TAC) | yhaB → | protein YhaB |
| RA | 3,353,248 | G→T | P268Q (CCG→CAG) | yhcC ← | radical SAM family oxidoreductase YhcC |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,402,523 | G→T | S270R (AGC→AGA) | csrD ← | regulator of CsrB and CsrC decay |
| RA | 3,446,113 | C→A | V10F (GTT→TTT) | rplF ← | 50S ribosomal subunit protein L6 |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,639,413 | C→A | S103I (AGC→ATC) | uspB ← | putative universal stress (ethanol tolerance) protein B |
| RA | 3,699,848 | G→A | P545P (CCG→CCA) | bcsG → | cellulose phosphoethanolamine transferase |
| RA | 3,778,951 | C→A | S518Y (TCT→TAT) | lldP → | lactate/glycolate:H(+) symporter LldP |
| RA | 3,785,210 | G→T | intergenic (‑195/‑50) | yibN ← / → gpmM | putative sulfurtransferase YibN/2,3‑bisphosphoglycerate‑independent phosphoglycerate mutase |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,864,560 | C→A | A221D (GCC→GAC) | yidP → | putative DNA‑binding transcriptional regulator YidP |
| RA | 3,920,655 | C→A | Q78H (CAG→CAT) | atpF ← | ATP synthase Fo complex subunit b |
| RA | 3,940,333 | C→A | A94S (GCA→TCA) | hsrA ← | putative transporter HsrA |
| RA | 4,138,701 | G→T | A112E (GCG→GAG) | gldA ← | L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase |
| RA | 4,226,297 | C→G | Q824E (CAG→GAG) | metH → | cobalamin‑dependent methionine synthase |
| RA | 4,231,947 | G→T | F429L (TTC→TTA) | lysC ← | aspartate kinase III |
| RA | 4,232,170 | G→T | T355N (ACC→AAC) | lysC ← | aspartate kinase III |
| RA | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,277,889 | G→A | E141K (GAA→AAA) | soxR → | DNA‑binding transcriptional dual regulator SoxR |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,323,152 | C→T | pseudogene (130/839 nt) | phnE ← | phosphonate ABC transporter membrane subunit |
| RA | 4,390,012 | G→T | L117M (CTG→ATG) | psd ← | phosphatidylserine decarboxylase proenzyme |
| RA | 4,495,739 | G→T | V157V (GTC→GTA) | ahr ← | aldehyde reductase, NADPH‑dependent |
| RA | 4,512,945 | C→A | A155A (GCG→GCT) | fecC ← | ferric citrate ABC transporter membrane subunit FecC |
| RA | 4,628,844 | C→A | intergenic (+297/+11) | nadR → / ← ettA | DNA‑binding transcriptional repressor/NMN adenylyltransferase NadR/energy‑dependent translational throttle protein EttA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 1196277 | 1211433 | 15157 | 40 [37] | [34] 39 | [icd]–[icdC] | [icd],ymfD,ymfE,lit,intE,xisE,ymfH,ymfI,ymfJ,ymfK,ymfT,ymfL,ymfM,oweE,ymfN,aaaE,ymfR,beeE,jayE,ymfQ,ycfK,tfaP,tfaE,stfE,pinE,mcrA,[icdC] |
| * | * | ÷ | NC_000913 | 3102952 | 3104083 | 1132 | 38 [36] | [37] 40 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423749–3424529 | 3424529 | 1–781 | 39 [37] | [37] 38 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 160 (1.250) | 82/270 | 0.1 | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 3363001 = | 220 (1.670) | 175 (1.340) | 77/276 | 0.1 | 61.0% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 5 (0.040) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 162 (1.230) | 87/278 | 0.1 | 96.4% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 6 (0.050) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||