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 |
| Marginal read alignment evidence (highest frequency 20 of 50 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,726,996 | 0 | A | . | 72.7% | ‑6.9 / 10.7 | 11 | noncoding (2189/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 1,529,203 | 0 | C | A | 61.2% | 15.7 / 64.1 | 49 | intergenic (+2051/‑719) | yncH/ydcD | DUF5445 domain‑containing protein YncH/uncharacterized protein YdcD |
| * | NC_000913 | 2,727,044 | 0 | C | A | 57.1% | ‑6.2 / 12.3 | 14 | noncoding (2141/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,727,048 | 0 | A | G | 57.1% | ‑6.2 / 13.6 | 14 | noncoding (2137/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,727,049 | 0 | C | T | 57.1% | ‑6.2 / 13.4 | 14 | noncoding (2136/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,726,651 | 0 | T | G | 50.0% | ‑4.6 / 52.7 | 30 | noncoding (2534/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,727,046 | 0 | A | C | 50.0% | ‑5.8 / 10.8 | 14 | noncoding (2139/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,726,555 | 0 | C | A | 48.0% | ‑4.2 / 29.4 | 25 | noncoding (2630/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 2,726,560 | 0 | C | T | 45.8% | ‑4.5 / 30.0 | 25 | noncoding (2625/2904 nt) | rrlG | 23S ribosomal RNA |
| * | NC_000913 | 361,311 | 0 | C | A | 34.1% | 182.2 / 14.9 | 149 | E184* (GAA→TAA) | lacA | galactoside O‑acetyltransferase |
| * | NC_000913 | 361,320 | 0 | C | A | 34.0% | 201.5 / 37.4 | 151 | V181F (GTT→TTT) | lacA | galactoside O‑acetyltransferase |
| * | NC_000913 | 1,529,180 | 0 | T | C | 32.1% | 47.9 / 22.2 | 28 | intergenic (+2028/‑742) | yncH/ydcD | DUF5445 domain‑containing protein YncH/uncharacterized protein YdcD |
| * | NC_000913 | 224,771 | 0 | C | G | 30.8% | 2040.0 / inf | 922 | noncoding (1001/1542 nt) | rrsH | 16S ribosomal RNA |
| * | NC_000913 | 361,349 | 0 | T | G | 30.7% | 233.9 / 29.4 | 151 | N171T (AAC→ACC) | lacA | galactoside O‑acetyltransferase |
| * | NC_000913 | 2,481,820 | 0 | C | A | 28.8% | 189.9 / 23.0 | 112 | M119I (ATG→ATT) | emrY | tripartite efflux pump membrane subunit EmrY |
| * | NC_000913 | 1,529,185 | 0 | C | T | 28.6% | 52.3 / 18.2 | 28 | intergenic (+2033/‑737) | yncH/ydcD | DUF5445 domain‑containing protein YncH/uncharacterized protein YdcD |
| * | NC_000913 | 2,730,908 | 0 | A | T | 27.0% | 1102.8 / inf | 463 | noncoding (250/1542 nt) | rrsG | 16S ribosomal RNA |
| * | NC_000913 | 4,244,613 | 0 | G | T | 26.6% | 161.5 / 12.5 | 94 | Q155K (CAA→AAA) | malF | maltose ABC transporter membrane subunit MalF |
| * | NC_000913 | 2,730,894 | 0 | G | C | 26.5% | 1051.8 / inf | 436 | noncoding (264/1542 nt) | rrsG | 16S ribosomal RNA |
| * | NC_000913 | 2,965,101 | 0 | T | G | 26.2% | 158.5 / 15.7 | 84 | N19H (AAC→CAC) | thyA | thymidylate synthase |
| Marginal new junction evidence (lowest skew 10 of 103 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1207805 | 119 (0.830) | 17 (0.130) | 13/248 | 3.2 | 12.3% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 138 (1.090) | intergenic (‑483/‑83) | tfaE/pinE | e14 prophage; putative tail fiber assembly protein TfaE/e14 prophage; site‑specific DNA recombinase | |||||
| * | ? | NC_000913 | = 374963 | 148 (1.040) | 22 (0.220) | 8/194 | 3.6 | 16.0% | intergenic (+82/‑496) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | = 377487 | 129 (1.310) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 1207790 = | 125 (0.880) | 29 (0.230) | 11/248 | 3.7 | 18.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 138 (1.090) | intergenic (‑500/‑66) | tfaE/pinE | e14 prophage; putative tail fiber assembly protein TfaE/e14 prophage; site‑specific DNA recombinase | |||||
| * | ? | NC_000913 | 4498181 = | NA (NA) | 20 (0.140) | 12/280 | 3.9 | NA | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 4499512 | NA (NA) | intergenic (+12/‑1748) | insD6/yjgZ | KpLE2 phage‑like element; IS2 insertion element protein InsB/KpLE2 phage‑like element; uncharacterized protein YjgZ | |||||
| * | ? | NC_000913 | 381258 = | NA (NA) | 18 (0.130) | 12/278 | 3.9 | NA | pseudogene (3/417 nt) | yaiX | putative acyltransferase, N‑terminal fragment |
| ? | NC_000913 | = 382589 | NA (NA) | noncoding (1330/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1286708 = | 257 (1.800) | 36 (0.300) | 9/238 | 4.1 | 9.7% | intergenic (+182/‑1) | narI/ychS | nitrate reductase A subunit gamma/putative uncharacterized protein YchS |
| ? | NC_000913 | = 1287241 | 453 (3.740) | intergenic (‑5/+3) | rttR/tyrV | small RNA RttR/tRNA‑Tyr | |||||
| * | ? | NC_000913 | 374922 = | 207 (1.450) | 43 (0.320) | 10/264 | 4.2 | 16.1% | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | 253 (1.880) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 375165 | 228 (1.600) | 12 (0.120) | 6/196 | 4.3 | 7.6% | intergenic (+284/‑294) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | = 377487 | 131 (1.320) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 2521253 = | 87 (0.610) | 11 (0.080) +AATGGTA |
9/266 | 4.5 | 11.8% | noncoding (1/76 nt) | lysV | tRNA‑Lys |
| ? | NC_000913 | 2729374 = | NA (NA) | noncoding (71/76 nt) | gltW | tRNA‑Glu | |||||
| * | ? | NC_000913 | 781368 = | 66 (0.460) | 15 (0.110) +ATGGTA |
9/268 | 4.5 | 19.2% | intergenic (+146/‑1) | lysY/lysZ | tRNA‑Lys/tRNA‑Lys |
| ? | NC_000913 | 2729374 = | NA (NA) | noncoding (71/76 nt) | gltW | tRNA‑Glu | |||||