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 | 343,320 | C→A | P146Q (CCG→CAG) | yahK → | aldehyde reductase, NADPH‑dependent |
RA | 386,530 | C→A | I108I (ATC→ATA) | tauB → | taurine ABC transporter ATP binding subunit |
RA | 406,302 | G→T | intergenic (+80/‑103) | yaiI → / → aroL | DUF188 domain‑containing protein YaiI/shikimate kinase 2 |
RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
MC JC | 1,047,381 | Δ69 bp | coding (497‑565/2097 nt) | gfcD ← | putative lipoprotein GfcD |
RA | 1,131,654 | C→A | P73T (CCG→ACG) | flgC → | flagellar basal‑body rod protein FlgC |
RA | 1,386,205 | C→T | A232V (GCC→GTC) | ycjF → | conserved inner membrane protein YcjF |
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 | 2,632,895 | G→A | G392G (GGC→GGT) | guaB ← | inosine 5'‑monophosphate dehydrogenase |
RA | 2,805,710 | C→A | A299E (GCA→GAA) | proV → | glycine betaine ABC transporter ATP binding subunit ProV |
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 | 3,618,914 | G→T | Q109H (CAG→CAT) | nikR → | DNA‑binding transcriptional repressor NikR |
JC JC | 3,727,876 | IS1 (–) +9 bp | intergenic (‑128/+33) | yiaB ← / ← xylB | conserved inner membrane protein YiaB/xylulokinase |
RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
RA | 3,847,258 | G→T | intergenic (‑91/+47) | uhpT ← / ← uhpC | hexose‑6‑phosphate:phosphate antiporter/inner membrane protein sensing glucose‑6‑phosphate |
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 | 3102993 | 3104069 | 1077 | 27 [23] | [23] 26 | mutY | mutY |
* | * | ÷ | NC_000913 | 3423767–3424234 | 3424525–3424238 | 5–759 | 25 [23] | [16] 24 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
Unassigned new junction evidence | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | NC_000913 | 1207790 = | 16 (0.190) | 92 (1.220) | 58/244 | 0.1 | 89.3% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
? | NC_000913 | 1209619 = | 8 (0.110) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
* | ? | NC_000913 | = 1207805 | 16 (0.190) | 38 (0.500) | 26/244 | 1.6 | 77.5% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
? | NC_000913 | = 1209602 | 8 (0.110) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
* | ? | NC_000913 | = 1299498 | 0 (0.000) | 79 (0.950) | 50/268 | 0.4 | 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 = | 121 (1.410) | 111 (1.310) | 59/274 | 0.2 | 64.5% | 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) | 104 (1.210) | 64/276 | 0.1 | 97.2% | noncoding (1/1195 nt) | IS5 | repeat region |
? | NC_000913 | = 3766089 | 3 (0.040) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA |