mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 | [crl] | [crl] | |
| MC JC | 1,299,499 | Δ1,199 bp | intergenic (+254/‑485) | ychE → / → oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| RA | 1,503,354 | C→T | pseudogene (296/432 nt) | insP ← | pseudogene, IS609 transposase A;IS, phage, Tn; Transposon‑related functions; extrachromosomal; transposon related |
| RA | 1,529,218 | C→T | pseudogene (1317/2037 nt) | rhsE → | pseudogene, Rhs family |
| MC JC | 1,978,503 | Δ776 bp | insB1–insA | insB1, insA | |
| 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 |
| MC JC | 2,393,422 | Δ13 bp | coding (1613‑1625/1842 nt) | nuoL ← | NADH:ubiquinone oxidoreductase, membrane subunit L |
| RA | 3,442,845 | G→A | A418V (GCT→GTT) | secY ← | preprotein translocase membrane subunit |
| 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 | 3,815,812 | G→T | intergenic (‑44/+22) | pyrE ← / ← rph | orotate phosphoribosyltransferase/ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH |
| RA | 4,296,384 | +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_3_vch_pgi | 365928 | 366385 | 458 | 3 [2] | [2] 3 | [lacZ] | [lacZ] |
| * | * | ÷ | NC_000913_3_vch_pgi | 3423762–3424234 | 3424522–3424240 | 7–761 | 3 [2] | [2] 3 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913_3_vch_pgi | 97574 = | 5 (0.330) | 3 (0.210) | 3/276 | 1.8 | 38.1% | coding (488/1317 nt) | murD | UDP‑N‑acetylmuramoyl‑L‑alanine:D‑glutamate ligase |
| ? | NC_000913_3_vch_pgi | 97595 = | 5 (0.350) | coding (509/1317 nt) | murD | UDP‑N‑acetylmuramoyl‑L‑alanine:D‑glutamate ligase | |||||
| * | ? | NC_000913_3_vch_pgi | = 1298962 | 10 (0.670) | 3 (0.200) | 3/284 | 1.8 | 23.3% | coding (365/648 nt) | ychE | UPF0056 family inner membrane protein |
| ? | NC_000913_3_vch_pgi | = 1298992 | 10 (0.680) | coding (395/648 nt) | ychE | UPF0056 family inner membrane protein | |||||