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 |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 375,168 | G→A | intergenic (+287/‑291) | mhpE → / → mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| RA | 375,176 | A→G | intergenic (+295/‑283) | mhpE → / → mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| RA | 809,328 | G→T | intergenic (‑71/‑16) | bioA ← / → bioB | adenosylmethionine‑8‑amino‑7‑oxononanoate aminotransferase/biotin synthase |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| JC | 1,198,460 | (AATGAAAT)3→4 | intergenic (‑223/‑235) | ymfE ← / → lit | e14 prophage; uncharacterized protein YmfE/e14 prophage; cell death peptidase Lit |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| 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 | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,748,665 | G→T | R235L (CGC→CTC) | ypjD → | cytochrome c assembly family protein |
| RA | 3,118,076 | G→T | A346E (GCG→GAG) | yghJ ← | putative lipoprotein YghJ |
| RA | 3,290,662 | C→A | L617M (CTG→ATG) | yraJ → | putative fimbrial usher protein YraJ |
| RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
| RA | 3,466,935 | G→C | R19R (CGC→CGG) | bfd ← | bacterioferritin‑associated ferredoxin |
| RA | 3,495,322 | G→T | A438S (GCC→TCC) | nirB → | nitrite reductase catalytic subunit NirB |
| RA | 3,511,065 | C→A | V120F (GTT→TTT) | yhfY ← | conserved protein YhfY |
| RA | 3,535,990 | G→T | R199S (CGC→AGC) | ompR ← | DNA‑binding transcriptional dual regulator OmpR |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 3,897,522 | G→T | R6L (CGG→CTG) | cbrB → | putative inner membrane protein |
| RA | 4,140,133 | G→T | L697M (CTG→ATG) | ptsA ← | putative PTS multiphosphoryl transfer protein PtsA |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102972 | 3104086 | 1115 | 35 [32] | [34] 36 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423749–3424234 | 3424540–3424239 | 6–792 | 35 [34] | [34] 37 | [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) | 97 (1.000) | 63/268 | 0.2 | 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 = | 136 (1.360) | 169 (1.700) | 82/274 | 0.0 | 71.2% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.020) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 100 (1.000) | 70/276 | 0.1 | 98.0% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.020) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | 4542682 = | 72 (0.720) | 27 (0.290) | 25/258 | 2.7 | 30.1% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 58 (0.620) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 72 (0.720) | 28 (0.300) | 24/258 | 2.8 | 30.9% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 58 (0.620) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||