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] | |
| JC JC | 564,107 | IS2 (+) +5 bp | coding (370‑374/633 nt) | sfmZ ← | response regulator family protein |
| RA | 756,623 | G→A | W239* (TGG→TGA) | sdhA → | succinate dehydrogenase, flavoprotein subunit |
| RA | 762,928 | 1 bp→GG | intergenic (+189/‑86) | sucB → / → sucC | dihydrolipoyltranssuccinase/succinyl‑CoA synthetase, beta subunit |
| 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 |
| 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 | 4,296,381 | +GC | intergenic (+587/+55) | gltP → / ← yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| JC JC | 4,543,608 | Δ1 bp :: IS186 (–) +6 bp :: Δ1 bp | coding (494‑499/549 nt) | fimA → | major type 1 subunit fimbrin (pilin) |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 761523 | 762741 | 1219 | 13 [11] | [12] 14 | [sucB] | [sucB] |
| * | * | ÷ | NC_000913 | 1209603 | 1209618 | 16 | 71 [0] | [1] 44 | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 7 (0.080) | 36 (0.460) | 31/254 | 1.2 | 92.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 0 (0.000) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 7 (0.080) | 67 (0.860) | 52/254 | 0.4 | 95.6% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 0 (0.000) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 32 (0.380) | 30/278 | 1.4 | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 1978503 = | NA (NA) | 76 (0.870) | 63/286 | 0.3 | 57.1% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 3902213 | 57 (0.650) | coding (8/1617 nt) | bglH | carbohydrate‑specific outer membrane porin, cryptic | |||||
| * | ? | NC_000913 | = 1979270 | NA (NA) | 43 (0.490) | 38/286 | 1.1 | 50.0% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 3658153 = | 43 (0.490) | intergenic (‑99/‑213) | arrS/gadE | antisense sRNA ArrS, function unknown/gad regulon transcriptional activator | |||||