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 | freq | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | 100% | insB9–[crl] | insB9, insA9, [crl] | |
| RA | 790,307 | A→G | 16.0% | V241V (GTT→GTC) | galT ← | galactose‑1‑phosphate uridylyltransferase |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | insH21 | insH21 | |
| RA | 1,769,067 | A→G | 16.7% | intergenic (‑382/‑7) | ydiJ ← / → ydiK | putative FAD‑linked oxidoreductase/putative transporter YdiK |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| JC JC | 1,979,486 | IS5 (+) +4 bp | 100% | intergenic (‑271/‑264) | insA‑5 ← / → uspC | IS1 protein InsA/universal stress protein C |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (917‑918/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,216,188 | A→G | 15.3% | F97L (TTT→CTT) | yehW ← | glycine betaine ABC transporter membrane subunit YehW |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 3,815,826 | C→A | 20.4% | intergenic (‑58/+37) | pyrE ← / ← rph | orotate phosphoribosyltransferase/truncated RNase PH |
| RA | 4,183,378 | T→C | 77.5% | S712P (TCC→CCC) | rpoB → | RNA polymerase subunit beta |
| RA | 4,296,060 | C→T | 57.1% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 283942 | 284051 | 110 | 2 [1] | [1] 2 | yagF | CP4‑6 prophage; D‑xylonate dehydratase |
| * | * | ÷ | NC_000913 | 320677 | 320724 | 48 | 2 [1] | [1] 2 | rclR | DNA‑binding transcriptional activator RclR |
| * | * | ÷ | NC_000913 | 1176682 | 1176687 | 6 | 2 [1] | [0] 3 | lolD | lipoprotein release complex ‑ ATP binding subunit |
| * | * | ÷ | NC_000913 | 1712242 | 1712254 | 13 | 2 [1] | [1] 2 | nth/dtpA | endonuclease III/dipeptide/tripeptide:H(+) symporter DtpA |
| * | * | ÷ | NC_000913 | 2109420 | 2109429 | 10 | 2 [1] | [0] 3 | rfbX | polyisoprenol‑linked O‑antigen repeat unit flippase |
| * | * | ÷ | NC_000913 | 2215262 | 2215282 | 21 | 2 [1] | [1] 2 | mlrA | DNA‑binding transcriptional activator MlrA |
| * | * | ÷ | NC_000913 | 2529456 | 2529498 | 43 | 3 [0] | [1] 2 | ligA | DNA ligase |
| * | * | ÷ | NC_000913 | 2550132 | 2550154 | 23 | 2 [1] | [1] 2 | yfeX | porphyrinogen peroxidase |
| * | * | ÷ | NC_000913 | 2560179 | 2560291 | 113 | 2 [1] | [1] 2 | [yffL] | [yffL] |
| * | * | ÷ | NC_000913 | 3423915–3424234 | 3424446–3424245 | 12–532 | 2 [1] | [1] 2 | rrlD | 23S ribosomal RNA |
| * | * | ÷ | NC_000913 | 3558301 | 3558315 | 15 | 5 [0] | [1] 5 | rtcR | DNA‑binding transcriptional activator RtcR |
| * | * | ÷ | NC_000913 | 3646882 | 3646921 | 40 | 2 [1] | [1] 2 | gor | glutathione reductase (NADPH) |
| * | * | ÷ | NC_000913 | 3878913 | 3878988 | 76 | 3 [1] | [1] 2 | gyrB | DNA gyrase subunit B |
| * | * | ÷ | NC_000913 | 4121367 | 4121415 | 49 | 2 [1] | [0] 3 | hslU | ATPase component of the HslVU protease |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 22 (1.220) | 13 (0.800) | 11/312 | NT | 52.1% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 4 (0.250) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 21 (1.170) | 9 (0.550) | 8/312 | NT | 43.9% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 4 (0.250) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 3463082 = | 12 (0.670) | 4 (0.230) | 4/334 | NT | 22.4% | coding (159/984 nt) | gspK | Type II secretion system protein GspK |
| ? | NC_000913 | 3463296 = | 16 (0.920) | coding (373/984 nt) | gspK | Type II secretion system protein GspK | |||||