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 | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 481,421 | C→A | A995S (GCT→TCT) | acrB ← | multidrug efflux pump RND permease AcrB |
| JC JC | 486,025 | IS1 (+) +9 bp | coding (265‑273/648 nt) | acrR → | DNA‑binding transcriptional repressor AcrR |
| RA | 803,662 | C→A | L54I (CTT→ATT) | ybhJ → | putative hydratase YbhJ |
| JC JC | 883,553 | IS30 (+) +2 bp | intergenic (‑165/‑119) | ybjG ← / → mdfA | undecaprenyl pyrophosphate phosphatase/multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| RA | 1,619,399 | C→T | R94C (CGC→TGC) | marR → | DNA‑binding transcriptional repressor MarR |
| RA | 1,905,761 | G→A | G25D (GGT→GAT) | mntP → | Mn(2(+)) exporter |
| MC JC | 1,978,503 | Δ776 bp | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,071,380 | A→G | noncoding (64/195 nt) | isrC → | small RNA IsrC |
| RA | 2,173,363 | Δ2 bp | pseudogene (915‑916/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 3,560,455 | +G | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| MC JC | 3,815,859 | Δ82 bp | [rph] | [rph] | |
| RA | 4,390,754 | G→T | A252A (GCC→GCA) | rsgA ← | ribosome small subunit‑dependent GTPase A |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423710–3424234 | 3424589–3424238 | 5–880 | 8 [6] | [1] 7 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 291401 | NA (NA) | 57 (1.270) | 27/134 | 0.1 | 53.3% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 873161 = | 50 (1.110) | coding (183/2349 nt) | pdeI | putative c‑di‑GMP phosphodiesterase PdeI | |||||
| * | ? | NC_000913 | = 890745 | 58 (1.310) | 88 (1.980) | 35/132 | 0.0 | 60.3% | coding (9/258 nt) | grxA | reduced glutaredoxin 1 |
| ? | NC_000913 | = 1050545 | NA (NA) | noncoding (768/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 64 (1.510) | 29/126 | 0.1 | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 1720809 = | 50 (1.130) | 19 (0.430) | 15/132 | 0.7 | 27.5% | coding (16/435 nt) | slyA | DNA‑binding transcriptional dual regulator SlyA |
| ? | NC_000913 | 2101749 = | NA (NA) | noncoding (1195/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 1720894 = | 20 (0.440) | 34 (0.750) | 21/134 | 0.4 | 63.0% | intergenic (‑70/‑131) | slyA/ydhI | DNA‑binding transcriptional dual regulator SlyA/DUF1656 domain‑containing protein YdhI |
| ? | NC_000913 | = 1979270 | NA (NA) | noncoding (1/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 1720902 | 20 (0.440) | 46 (1.020) | 25/134 | 0.2 | 69.7% | intergenic (‑78/‑123) | slyA/ydhI | DNA‑binding transcriptional dual regulator SlyA/DUF1656 domain‑containing protein YdhI |
| ? | NC_000913 | 1978503 = | NA (NA) | noncoding (768/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | 1978503 = | NA (NA) | 15 (0.330) | 9/134 | 1.5 | 42.9% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 2806300 | 20 (0.440) | coding (291/1065 nt) | proW | glycine betaine ABC transporter membrane subunit ProW | |||||