mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 180,422 | G→A | V396I (GTC→ATC) | dgt → | dGTP triphosphohydrolase |
| RA | 251,593 | C→A | R232R (CGC→CGA) | dinB → | DNA polymerase IV |
| MC JC | 257,908 | Δ776 bp | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 531,122 | G→T | P35P (CCC→CCA) | selU ← | tRNA 2‑selenouridine synthase |
| RA | 774,979 | C→A | L76L (CTC→CTA) | ybgC → | esterase/thioesterase |
| RA | 780,775 | C→A | noncoding (11/76 nt) | valT → | tRNA‑Val |
| RA | 796,327 | G→T | A156S (GCT→TCT) | modB → | molybdate ABC transporter membrane subunit |
| RA | 853,665 | C→T | R7C (CGC→TGC) | ybiR → | putative transporter YbiR |
| RA | 889,923 | A→G | intergenic (‑104/‑166) | ybjL ← / → ybjM | putative transport protein YbjL/putative inner membrane protein |
| RA | 1,221,708 | G→T | pseudogene (2108/2648 nt) | ycgH → | putative transporter component, N‑terminal fragment |
| RA | 1,225,335 | C→A | S9S (TCG→TCT) | minD ← | Z‑ring positioning protein MinD |
| RA | 1,503,276 | C→A | intergenic (+151/‑441) | ydcL → / → insQ | DUF3313 domain‑containing lipoprotein YdcL/putative insertion element transposase InsQ |
| JC JC | 1,530,757 | IS5 (–) +4 bp | pseudogene (172‑175/1054 nt) | yncI → | putative transposase YncI |
| RA | 1,608,834 | G→T | A63A (GCC→GCA) | yneE ← | conserved inner membrane protein YneE |
| RA | 1,678,604 | G→T | A60S (GCA→TCA) | ydgH → | DUF1471 domain‑containing protein YdgH |
| RA | 1,686,252 | G→T | R113R (CGG→AGG) | fumC ← | fumarase C |
| JC JC | 1,879,829 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (115‑120/360 nt) | yeaR ← | DUF1971 domain‑containing protein YeaR |
| RA | 1,931,446 | C→A | A189E (GCG→GAG) | purT → | phosphoribosylglycinamide formyltransferase 2 |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,011,317 | T→C | pseudogene (1035/1129 nt) | yedN ← | putative type III secreted effector, N‑terminal fragment |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,339,278 | A→T | V48E (GTA→GAA) | gyrA ← | DNA gyrase subunit A |
| RA | 2,420,144 | C→A | M114I (ATG→ATT) | yfcF ← | glutathione S‑transferase YfcF |
| RA | 2,578,434 | C→A | intergenic (‑57/‑232) | maeB ← / → talA | malate dehydrogenase/transaldolase A |
| RA | 2,690,982 | C→A | A39A (GCG→GCT) | glrK ← | sensory histidine kinase GlrK |
| RA | 3,105,439 | G→T | R336L (CGC→CTC) | mltC → | membrane‑bound lytic murein transglycosylase C |
| RA | 3,256,565 | T→C | E29E (GAA→GAG) | cyuA ← | putative L‑cysteine desulfidase CyuA |
| 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 | 3,600,220 | G→T | D188E (GAC→GAA) | rpoH ← | RNA polymerase, sigma 32 (sigma H) factor |
| RA | 3,768,410 | G→T | L78F (TTG→TTT) | yibG → | tetratricopeptide‑like domain‑containing protein YibG |
| RA | 3,815,883 | +C | coding (667/687 nt) | rph ← | truncated RNase PH |
| RA | 4,138,121 | C→A | L305F (TTG→TTT) | gldA ← | L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase |
| 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 | 4,565,464 | C→A | L129F (TTG→TTT) | yjiM ← | putative dehydratase subunit |
| RA | 4,621,303 | G→A | A141T (GCA→ACA) | deoD → | purine nucleoside phosphorylase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3102970 | 3104081 | 1112 | 16 [15] | [14] 16 | mutY | mutY |
| * | * | ÷ | NC_000913 | 3423770–3424233 | 3424527–3424242 | 10–758 | 20 [14] | [15] 16 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| * | * | ÷ | NC_000913 | 4035227–4035733 | 4036972–4035735 | 3–1746 | 16 [15] | [12] 16 | [rrsA] | [rrsA] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 102 (1.520) | 65/268 | 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 = | 117 (1.700) | 94 (1.370) | 56/274 | 0.1 | 61.4% | coding (195/2382 nt) | yhcD | putative fimbrial usher protein YhcD |
| ? | NC_000913 | 3766087 = | 2 (0.030) | coding (3905/4134 nt) | rhsA | rhs element protein RhsA | |||||
| * | ? | NC_000913 | = 3653230 | NA (NA) | 74 (1.070) | 47/276 | 0.3 | 100% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3766089 | 0 (0.000) | coding (3907/4134 nt) | rhsA | rhs element protein RhsA | |||||