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 | 1,529,218 | 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 | 3,560,455 | +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 | 4,188,953 | G→A | E1202K (GAA→AAA) | rpoC → | RNA polymerase, beta prime subunit |
| 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 | 366118 | 366420 | 303 | 4 [3] | [3] 6 | [lacZ] | [lacZ] |
| * | * | ÷ | NC_000913_3_vch_pgi | 3423731–3424234 | 3424514–3424238 | 5–784 | 4 [3] | [3] 4 | [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 | 1097434 = | NA (NA) | 3 (0.170) | 3/282 | 2.4 | 25.4% | intergenic (+605/+131) | ycdU/serX | putative inner membrane protein/tRNA‑Ser |
| ? | NC_000913_3_vch_pgi | 1097447 = | 9 (0.490) | intergenic (+618/+118) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913_3_vch_pgi | 1207790 = | 22 (1.200) | 5 (0.310) | 5/256 | 1.5 | 23.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913_3_vch_pgi | 1209619 = | 14 (0.860) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913_3_vch_pgi | 1671424 = | 11 (0.600) | 3 (0.170) | 3/278 | 2.3 | 21.0% | coding (49/309 nt) | asr | acid shock‑inducible periplasmic protein |
| ? | NC_000913_3_vch_pgi | 1671444 = | 12 (0.680) | coding (69/309 nt) | asr | acid shock‑inducible periplasmic protein | |||||
| * | ? | NC_000913_3_vch_pgi | 2729475 = | 12 (0.650) | 3 (0.180) | 3/268 | 2.3 | 25.9% | intergenic (‑31/+141) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon |
| ? | NC_000913_3_vch_pgi | = 4168363 | 6 (0.350) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913_3_vch_pgi | 4168332 = | 8 (0.440) | 3 (0.180) | 3/268 | 2.3 | 30.9% | intergenic (+132/‑40) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913_3_vch_pgi | 4168374 = | 6 (0.350) | noncoding (3/76 nt) | gltT | tRNA‑Glu | |||||