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 | 102,587 | C→A | R119S (CGC→AGC) | ddlB → | D‑alanine‑‑D‑alanine ligase B |
| RA | 121,281 | C→A | A91S (GCC→TCC) | aroP ← | aromatic amino acid:H(+) symporter AroP |
| RA | 187,926 | G→T | A242E (GCA→GAA) | glnD ← | PII uridylyltransferase/uridylyl removing enzyme |
| RA | 223,514 | A→G | intergenic (+106/‑257) | gmhB → / → rrsH | D‑glycero‑beta‑D‑manno‑heptose‑1,7‑bisphosphate 7‑phosphatase/16S ribosomal RNA |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 479,285 | G→A | intergenic (‑34/+82) | ylaC ← / ← maa | putative inner membrane protein/maltose O‑acetyltransferase |
| RA | 736,357 | T→C | intergenic (+138/‑88) | ybfC → / → ybfQ | uncharacterized protein YbfC/inactive transposase YbfQ |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| 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 | 1,349,168 | A→G | S314P (TCT→CCT) | yciW ← | putative oxidoreductase |
| RA | 1,349,854 | C→A | R85L (CGC→CTC) | yciW ← | putative oxidoreductase |
| RA | 1,436,833 | C→A | A21S (GCA→TCA) | ompN ← | outer membrane porin N |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,704,711 | G→T | intergenic (+35/‑238) | blr → / → cnu | beta‑lactam resistance protein/H‑NS‑ and StpA‑binding protein |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,008,594 | G→A | P106P (CCG→CCA) | yedE → | putative selenium transporter YedE |
| RA | 2,023,929 | T→C | intergenic (+251/‑39) | fliR → / → rcsA | flagellar biosynthesis protein FliR/DNA‑binding transcriptional activator RcsA |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| MC JC | 2,339,172 | Δ3 bp | coding (247‑249/2628 nt) | gyrA ← | DNA gyrase subunit A |
| RA | 2,400,815 | G→T | T247T (ACC→ACA) | nuoF ← | NADH:quinone oxidoreductase subunit F |
| RA | 2,478,871 | C→A | P342Q (CCG→CAG) | dsdX → | D‑serine transporter |
| RA | 2,594,589 | G→T | A424E (GCG→GAG) | tmcA ← | tRNA(Met) cytidine acetyltransferase |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,745,361 | G→T | M186I (ATG→ATT) | yiaN → | 2,3‑diketo‑L‑gulonate:Na(+) symporter ‑ membrane subunit |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,839,349 | C→A | V215V (GTG→GTT) | nlpA ← | lipoprotein‑28 |
| MC JC | 3,927,532 | Δ4 bp | coding (378‑381/993 nt) | asnA → | asparagine synthetase A |
| RA | 4,053,553 | C→A | intergenic (+135/+94) | hemN → / ← yshB | coproporphyrinogen III dehydrogenase/uncharacterized protein YshB |
| RA | 4,261,710 | C→A | S14R (AGC→AGA) | dusA → | tRNA‑dihydrouridine synthase A |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,349,010 | C→A | intergenic (‑266/+305) | dcuB ← / ← dcuR | anaerobic C4‑dicarboxylate transporter DcuB/DNA‑binding transcriptional activator DcuR |
| RA | 4,462,842 | A→G | intergenic (‑182/+212) | nrdD ← / ← treC | anaerobic ribonucleoside‑triphosphate reductase/trehalose‑6‑phosphate hydrolase |
| RA | 4,551,012 | G→T | L95L (CTC→CTA) | gntP ← | fructuronate transporter |
| RA | 4,552,776 | C→A | R381S (CGC→AGC) | uxuA → | D‑mannonate dehydratase |
| RA | 4,560,757 | C→T | intergenic (‑77/‑173) | yjiH ← / → kptA | Gate family protein YjiH/RNA 2'‑phosphotransferase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 696780 | 696895 | 116 | 7 [6] | [6] 7 | [glnW]–[glnU] | [glnW],[glnU] |
| * | * | ÷ | NC_000913 | 1196280 | 1211419 | 15140 | 7 [5] | [4] 7 | [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 | 3102971 | 3104043 | 1073 | 7 [6] | [0] 7 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423786–3424233 | 3424528–3424239 | 7–743 | 7 [6] | [6] 7 | [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) | 64 (1.530) | 51/268 | 0.0 | 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 = | 79 (1.830) | 78 (1.820) | 52/274 | 0.0 | 66.5% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 0 (0.000) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 56 (1.300) | 46/276 | 0.0 | 94.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 3 (0.070) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||