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 | 864,990 | G→T | S47* (TCG→TAG) | moeB ← | molybdopterin‑synthase adenylyltransferase |
RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
RA | 980,779 | C→A | A1485E (GCG→GAG) | mukB → | chromosome partitioning protein MukB |
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 | 1,306,862 | C→A | E97* (GAA→TAA) | yciU ← | DUF440 domain‑containing protein YciU |
RA | 1,505,306 | G→T | P259T (CCT→ACT) | ydcO ← | putative transport protein YdcO |
RA | 1,543,242 | C→A | A273A (GCG→GCT) | narU ← | nitrate/nitrite transporter NarU |
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 |
RA | 1,938,402 | G→T | D252Y (GAC→TAC) | pykA → | pyruvate kinase II |
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 | 2,521,136 | C→A | intergenic (+10/‑37) | valX → / → valY | tRNA‑Val/tRNA‑Val |
JC JC | 3,307,688 | IS1 (+) +9 bp | coding (165‑173/1890 nt) | deaD ← | ATP‑dependent RNA helicase DeaD |
RA | 3,354,487 | C→T | intergenic (‑437/‑238) | yhcC ← / → gltB | radical SAM family oxidoreductase YhcC/glutamate synthase subunit GltB |
RA | 3,462,087 | G→T | E38D (GAG→GAT) | gspI → | Type II secretion system protein GspI |
RA | 3,477,822 | G→A | A61A (GCG→GCA) | slyX → | protein SlyX |
RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
RA | 3,810,995 | T→A | Q53L (CAG→CTG) | mutM ← | DNA‑formamidopyrimidine glycosylase |
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 | 4,408,555 | G→T | L634L (CTG→CTT) | rnr → | RNase R |
Unassigned missing coverage evidence | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
seq id | start | end | size | ←reads | reads→ | gene | description | |||
* | * | ÷ | NC_000913 | 1196245 | 1211438 | 15194 | 44 [30] | [35] 38 | [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 | 3102948 | 3104067 | 1120 | 36 [35] | [35] 37 | mutY | mutY |
* | * | ÷ | NC_000913 | 3423757–3424234 | 3424525–3424240 | 7–769 | 36 [35] | [30] 40 | [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 (0.980) | 65/268 | 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 = | 110 (1.080) | 134 (1.330) | 71/274 | 0.1 | 70.7% | 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) | 110 (1.080) | 63/276 | 0.3 | 95.7% | noncoding (1/1195 nt) | IS5 | repeat region |
? | NC_000913 | = 3766089 | 5 (0.050) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA |