mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | [crl] | [crl] | |
| RA | 754,654 | G→T | intergenic (‑186/‑523) | gltA ← / → sdhC | citrate synthase/succinate dehydrogenase, membrane subunit, binds cytochrome b556 |
| RA | 1,158,626 | G→A | G253D (GGC→GAC) | ptsG → | fused glucose‑specific PTS enzymes: IIB component/IIC component |
| MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
| JC JC | 1,979,486 | IS5 (+) +4 bp | intergenic (‑271/‑264) | insA ← / → uspC | IS1 repressor TnpA/universal stress protein |
| RA | 2,132,787 | A→C | I204S (ATC→AGC) | wcaA ← | putative glycosyl transferase |
| RA | 2,173,363 | Δ2 bp | intergenic (‑1/+1) | gatC ← / ← gatC | pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC/pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC |
| JC JC | 2,413,482 | IS5 (–) +4 bp | coding (13‑16/1203 nt) | ackA → | acetate kinase A and propionate kinase 2 |
| RA | 2,722,202 | T→G | D750E (GAT→GAG) | pka → | protein lysine acetyltransferase |
| MC JC | 3,176,353 | (GCA)4→3 | coding (479‑481/828 nt) | cpdA ← | 3',5' cAMP phosphodiesterase |
| RA | 3,560,455 | +G | intergenic (‑2/+1) | glpR ← / ← glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| RA | 3,801,032 | C→T | G323E (GGA→GAA) | waaR ← | lipopolysaccharide 1,2‑glucosyltransferase; UDP‑glucose:(glucosyl)LPS alpha‑1,2‑glucosyltransferase |
| JC | 3,815,859 | Δ82 bp | [rph]–[rph] | [rph], [rph] | |
| MC JC | 4,001,645 | Δ5 bp | coding (220‑224/951 nt) | corA → | magnesium/nickel/cobalt transporter |
| RA | 4,184,543 | C→A | P1100Q (CCG→CAG) | rpoB → | RNA polymerase, beta subunit |
| RA | 4,287,443 | G→T | intergenic (‑72/‑321) | acs ← / → nrfA | acetyl‑CoA synthetase/nitrite reductase, formate‑dependent, cytochrome |
| RA | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 123048 | 127562 | 4515 | 10 [8] | [9] 10 | [aceE]–[aceF] | [aceE],[aceF] |
| * | * | ÷ | NC_000913 | 1293040 | 1312560 | 19521 | 36 [0] | [0] 46 | tdk–[yciB] | tdk,insZ,insZ,insZ,adhE,ychE,oppA,oppB,oppC,oppD,oppF,yciU,clsA,yciY,kch,yciI,tonB,yciA,[yciB] |
| * | * | ÷ | NC_000913 | 2066278–2066587 | 2066587 | 1–310 | 10 [8] | [9] 11 | [insH1] | [insH1] |
| * | * | ÷ | NC_000913 | 3423733–3424234 | 3424547–3424238 | 5–815 | 11 [9] | [9] 12 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 257908 = | NA (NA) | 35 (0.960) | 33/260 | 0.2 | 100% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 1293039 | 0 (0.000) | intergenic (‑117/‑488) | hns/tdk | global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase | |||||
| * | ? | NC_000913 | = 258675 | NA (NA) | 46 (1.270) | 39/260 | 0.1 | 100% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 1312561 = | 0 (0.000) | coding (330/540 nt) | yciB | IspA family inner membrane protein | |||||
| * | ? | NC_000913 | 274620 = | NA (NA) | 10 (0.300) | 8/242 | 3.0 | NA | noncoding (530/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274663 = | NA (NA) | noncoding (487/1195 nt) | IS5 | repeat region | |||||