mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 665 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 357,890 | 0 | C | A | 65.4% | 10.2 / 9.4 | 26 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 4,604,350 | 0 | C | T | 59.7% | ‑5.4 / 106.8 | 119 | S64F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 4,604,344 | 0 | C | T | 57.6% | 7.1 / 107.2 | 119 | S62F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 357,880 | 0 | T | C | 53.1% | 22.2 / 42.8 | 32 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 1,603,923 | 0 | T | G | 52.7% | 36.2 / 66.2 | 55 | V302G (GTG→GGG) | lsrC | autoinducer 2 import system permease protein |
| * | NC_000913 | 3,665,702 | 0 | C | A | 52.0% | 62.2 / 152.3 | 99 | A37S (GCG→TCG) | gadX | acid resistance regulon transcriptional activator; autoactivator |
| * | NC_000913 | 354,288 | 0 | T | G | 51.2% | 28.6 / 54.5 | 41 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 523,335 | 0 | T | G | 51.0% | 50.8 / 72.3 | 51 | G25G (GGT→GGG) | rhsD | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| * | NC_000913 | 357,887 | 0 | C | A | 50.0% | ‑5.3 / 13.4 | 26 | L268F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 366,526 | 0 | T | G | 50.0% | 48.0 / 29.2 | 50 | T329P (ACC→CCC) | lacI | lactose‑inducible lac operon transcriptional repressor |
| * | NC_000913 | 501,575 | 0 | A | C | 49.2% | 85.1 / 17.6 | 67 | V555G (GTG→GGG) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 357,875 | 0 | A | T | 48.5% | 20.6 / 16.7 | 34 | N272K (AAT→AAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 3,556,207 | 0 | T | C | 47.5% | 63.9 / 33.5 | 62 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 3,665,698 | 0 | T | C | 46.9% | 71.7 / 76.1 | 97 | D38G (GAT→GGT) | gadX | acid resistance regulon transcriptional activator; autoactivator |
| * | NC_000913 | 357,873 | 0 | C | T | 46.7% | 11.5 / 18.9 | 34 | S273N (AGC→AAC) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 501,572 | 0 | A | C | 46.3% | 95.9 / 11.0 | 67 | V556G (GTG→GGG) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 3,813,272 | 0 | C | T | 45.8% | 21.2 / 27.6 | 48 | S181L (TCG→TTG) | dfp | fused 4'‑phosphopantothenoylcysteine decarboxylase/phosphopantothenoylcysteine synthetase, FMN‑binding |
| * | NC_000913 | 3,760,384 | 0 | A | C | 44.9% | 28.2 / 14.9 | 49 | V289G (GTG→GGG) | selA | selenocysteine synthase |
| * | NC_000913 | 29,496 | 0 | T | A | 44.4% | 62.1 / 35.6 | 54 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 993,917 | 0 | A | C | 44.0% | 77.4 / 10.3 | 50 | V43G (GTG→GGG) | ssuB | aliphatic sulfonate ABC transporter ATPase |
| Marginal new junction evidence (lowest skew 10 of 89 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3216165 = | 69 (0.870) | 9 (0.120) | 9/278 | 5.2 | 12.2% | coding (327/765 nt) | yqjH | putative siderophore interacting protein |
| ? | NC_000913 | 3216247 = | 65 (0.880) | coding (245/765 nt) | yqjH | putative siderophore interacting protein | |||||
| * | ? | NC_000913 | 3858193 = | 77 (0.970) | 8 (0.110) | 8/272 | 5.5 | 9.6% | coding (212/1494 nt) | yidJ | sulfatase/phosphatase superfamily protein |
| ? | NC_000913 | 3858242 = | 81 (1.120) | coding (163/1494 nt) | yidJ | sulfatase/phosphatase superfamily protein | |||||
| * | ? | NC_000913 | 2721524 = | 69 (0.870) | 7 (0.090) | 7/278 | 6.0 | 9.4% | coding (1572/2661 nt) | pka | protein lysine acetyltransferase |
| ? | NC_000913 | 2721614 = | 70 (0.940) | coding (1662/2661 nt) | pka | protein lysine acetyltransferase | |||||
| * | ? | NC_000913 | = 251816 | 68 (0.860) | 8 (0.110) | 7/282 | 6.1 | 9.4% | coding (919/1056 nt) | dinB | DNA polymerase IV |
| ? | NC_000913 | = 251864 | 89 (1.180) | coding (967/1056 nt) | dinB | DNA polymerase IV | |||||
| * | ? | NC_000913 | 3927418 = | 73 (0.920) | 9 (0.120) | 6/274 | 6.4 | 11.8% | coding (264/993 nt) | asnA | asparagine synthetase A |
| ? | NC_000913 | 3927457 = | 68 (0.930) | coding (303/993 nt) | asnA | asparagine synthetase A | |||||
| * | ? | NC_000913 | 4542682 = | 75 (0.940) | 6 (0.080) | 6/280 | 6.5 | 7.5% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 78 (1.040) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 3381839 = | 67 (0.840) | 7 (0.090) | 6/280 | 6.5 | 9.5% | coding (1097/1368 nt) | degQ | serine endoprotease, periplasmic |
| ? | NC_000913 | 3381869 = | 70 (0.940) | coding (1127/1368 nt) | degQ | serine endoprotease, periplasmic | |||||
| * | ? | NC_000913 | = 2713829 | 72 (0.910) | 8 (0.110) | 6/276 | 6.5 | 9.6% | coding (934/1335 nt) | srmB | ATP‑dependent RNA helicase |
| ? | NC_000913 | = 2713908 | 84 (1.140) | coding (1013/1335 nt) | srmB | ATP‑dependent RNA helicase | |||||
| * | ? | NC_000913 | = 2442529 | 57 (0.720) | 6 (0.080) | 6/280 | 6.5 | 10.7% | coding (766/2007 nt) | mnmC | fused 5‑methylaminomethyl‑2‑thiouridine‑forming enzyme methyltransferase and FAD‑dependent demodification enzyme |
| ? | NC_000913 | = 2442614 | 47 (0.630) | coding (851/2007 nt) | mnmC | fused 5‑methylaminomethyl‑2‑thiouridine‑forming enzyme methyltransferase and FAD‑dependent demodification enzyme | |||||
| * | ? | NC_000913 | 1045201 = | 78 (0.980) | 6 (0.080) | 6/280 | 6.5 | 7.8% | coding (603/1140 nt) | gfcE | putative O‑antigen capsule outer membrane auxillary protein export channel |
| ? | NC_000913 | 1045310 = | 69 (0.920) | coding (494/1140 nt) | gfcE | putative O‑antigen capsule outer membrane auxillary protein export channel | |||||