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 | 2,242 | C→A | L636I (CTT→ATT) | thrA → | fused aspartate kinase/homoserine dehydrogenase 1 |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 411,344 | G→T | R380S (CGC→AGC) | araJ ← | putative transport protein AraJ |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 903,356 | C→A | E127* (GAA→TAA) | artP ← | L‑arginine ABC transporter ATP binding subunit |
| RA | 1,111,934 | G→T | G358W (GGG→TGG) | opgH → | osmoregulated periplasmic glucans (OPGs) biosynthesis protein H |
| RA | 1,196,751 | G→T | intergenic (+378/+116) | icd → / ← ymfD | isocitrate dehydrogenase/e14 prophage; putative SAM‑dependent methyltransferase |
| JC JC | 1,219,328 | IS2 (+) +5 bp | intergenic (+127/‑269) | ymgF → / → ycgH | inner membrane protein that interacts with cell division proteins/putative transporter component, N‑terminal fragment |
| RA | 1,588,191 | C→A | A36S (GCT→TCT) | ydeR ← | putative fimbrial protein YdeR |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,704,690 | G→T | intergenic (+14/‑259) | 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 |
| RA | 1,964,942 | G→T | L37M (CTG→ATG) | flhA ← | flagellar biosynthesis protein FlhA |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,058,358 | C→A | G497C (GGC→TGC) | yeeO ← | FMN/FAD exporter |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,849,127 | C→A | G39C (GGC→TGC) | hycC ← | formate hydrogenlyase subunit HycC |
| RA | 3,049,975 | C→A | A231A (GCG→GCT) | gcvT ← | aminomethyltransferase |
| RA | 3,268,876 | C→A | S154S (TCC→TCA) | yhaC → | uncharacterized protein YhaC |
| RA | 3,269,266 | C→A | I284I (ATC→ATA) | yhaC → | uncharacterized protein YhaC |
| 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 | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| 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 | 4,400,336 | C→A | R17R (CGG→AGG) | hfq → | RNA‑binding protein Hfq |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102993 | 3104048 | 1056 | 19 [18] | [14] 20 | [mutY] | [mutY] |
| * | * | ÷ | NC_000913 | 3423783–3424231 | 3424525–3424239 | 9–743 | 19 [17] | [16] 22 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 375183 = | NA (NA) | 29 (0.440) | 15/238 | 2.5 | NA | intergenic (+302/‑276) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377372 = | NA (NA) | noncoding (37/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | 1207790 = | 80 (1.060) | 26 (0.390) | 22/244 | 1.6 | 29.3% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 55 (0.820) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 126 (1.720) | 71/268 | 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 = | 154 (2.040) | 124 (1.650) | 69/274 | 0.0 | 61.7% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 1 (0.010) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 103 (1.360) | 64/276 | 0.1 | 98.1% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 2 (0.030) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||