mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.32.0b
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 444,779 | C→T | W440* (TGG→TAG) | cyoB ← | cytochrome o ubiquinol oxidase subunit I |
| RA | 1,191,676 | C→T | H366H (CAC→CAT) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,688 | C→T | T370T (ACC→ACT) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,701 | T→C | L375M (TTA→CTG) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 1,191,703 | A→G | L375M (TTA→CTG) | icd → | e14 prophage; isocitrate dehydrogenase, specific for NADP+ |
| RA | 2,305,946 | G→T | R95S (CGT→AGT) | ompC ← | outer membrane porin protein C |
| RA | 2,506,454 | C→T | intergenic (‑269/‑67) | mntH ← / → nupC | manganese/divalent cation transporter/nucleoside (except guanosine) transporter |
| MC JC | 3,341,548 | Δ17,367 bp | IS5‑mediated | [npr]–yhcE | [npr], yrbL, mtgA, elbB, arcB, yhcC, gltB, gltD, gltF, yhcA, yhcD, yhcE |
| RA | 3,528,506 | A→C | V241G (GTA→GGA) | envZ ← | sensory histidine kinase in two‑component regulatory system with OmpR |
| RA | 3,676,832 | G→T | intergenic (‑25/+158) | dctA ← / ← yhjK | C4‑dicarboxylic acid, orotate and citrate transporter/cyclic‑di‑GMP phosphodiesterase |
| JC | 3,676,860 | (GGTACCTGCGG)1→2 | intergenic (‑53/+130) | dctA ← / ← yhjK | C4‑dicarboxylic acid, orotate and citrate transporter/cyclic‑di‑GMP phosphodiesterase |
| RA | 4,568,602 | C→A | E185* (GAG→TAG) | mcrB ← | 5‑methylcytosine‑specific restriction enzyme McrBC, subunit McrB |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP009273 | 1116995 | 1118105 | 1111 | 26 [25] | [24] 26 | pyrC | pyrC |
| * | * | ÷ | CP009273 | 1191733 | 1206923 | 15191 | 26 [21] | [25] 26 | [icd]–[icdC] | 25 genes [icd], ymfD, ymfE, lit, intE, xisE, ymfI, ymfJ, cohE, croE, ymfL, ymfM, oweE, aaaE, ymfR, beeE, jayE, ymfQ, stfP, tfaP, tfaE, stfE, pinE, mcrA, [icdC] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 1045234 = | 57 (0.930) | 57 (0.930) | 49/292 | 0.3 | 64.8% | intergenic (‑34/‑55) | gfcA/insA | O‑antigen capsule production threonine‑rich inner membrane protein/IS1 repressor TnpA |
| ? | CP009273 | = 1973123 | 5 (0.080) | intergenic (‑669/‑111) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein | |||||
| * | ? | CP009273 | = 1046001 | 58 (0.950) | 50 (0.820) | 43/292 | 0.5 | 62.5% | intergenic (+15/+418) | insB1/cspH | IS1 transposase B/stress protein, member of the CspA‑family |
| ? | CP009273 | 1973115 = | 2 (0.030) | intergenic (‑661/‑119) | flhD/uspC | flagellar class II regulon transcriptional activator, with FlhC/universal stress protein | |||||
| * | ? | CP009273 | = 3628663 | 58 (0.950) | 51 (0.830) | 44/292 | 0.4 | 46.8% | coding (463/1053 nt) | yhiM | acid resistance protein, inner membrane |
| ? | CP009273 | 3645396 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||