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 102 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 766,353 | 0 | T | G | 67.9% | ‑0.7 / 23.7 | 28 | intergenic (+286/‑561) | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 65.6% | 7.8 / 29.6 | 32 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 65.2% | ‑2.8 / 17.8 | 24 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 371,031 | 0 | T | G | 62.5% | 7.5 / 15.4 | 17 | G39G (GGT→GGG) | mhpT | 3‑(3‑hydroxy‑phenyl)propionate transporter |
| * | NZ_CP009273 | 2,319,929 | 0 | T | G | 60.7% | ‑4.9 / 32.6 | 28 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NZ_CP009273 | 2,380,357 | 0 | A | T | 60.0% | 9.2 / 32.6 | 30 | intergenic (+47/‑56) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 2,794,496 | 0 | T | G | 60.0% | 15.1 / 18.3 | 20 | V58G (GTG→GGG) | nrdI | class Ib ribonucleoside‑diphosphate reductase assembly flavoprotein NrdI |
| * | NZ_CP009273 | 2,794,508 | 0 | T | G | 60.0% | 5.8 / 18.6 | 21 | V62G (GTA→GGA) | nrdI | class Ib ribonucleoside‑diphosphate reductase assembly flavoprotein NrdI |
| * | NZ_CP009273 | 2,380,331 | 0 | T | G | 58.8% | 32.6 / 40.1 | 34 | intergenic (+21/‑82) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 2,669,465 | 0 | C | A | 58.8% | ‑0.5 / 13.2 | 17 | L240F (TTG→TTT) | yphD | ABC transporter permease |
| * | NZ_CP009273 | 2,458,992 | 0 | C | G | 58.3% | 4.6 / 14.1 | 12 | G71G (GGC→GGG) | yfdC | formate/nitrite transporter family protein |
| * | NZ_CP009273 | 1,213,865 | 0 | G | T | 57.1% | 9.0 / 30.2 | 21 | S361I (AGT→ATT) | pdeG | cyclic diguanylate phosphodiesterase |
| * | NZ_CP009273 | 2,380,342 | 0 | C | A | 56.2% | 19.1 / 44.3 | 32 | intergenic (+32/‑71) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 56.2% | 9.7 / 57.8 | 48 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 56.2% | 8.9 / 59.4 | 48 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 4,475,282 | 0 | T | G | 55.9% | 27.5 / 40.2 | 34 | T163P (ACC→CCC) | pepA | leucyl aminopeptidase |
| * | NZ_CP009273 | 2,380,362 | 0 | C | T | 55.6% | 4.9 / 48.8 | 36 | intergenic (+52/‑51) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 4,561,000 | 0 | A | C | 54.0% | 21.9 / 45.5 | 37 | V131G (GTG→GGG) | yjiR | PLP‑dependent aminotransferase family protein |
| * | NZ_CP009273 | 1,392,087 | 0 | T | C | 53.8% | 0.6 / 12.1 | 13 | I265V (ATT→GTT) | uspE | universal stress protein UspE |
| * | NZ_CP009273 | 1,152,727 | 0 | T | G | 53.3% | 14.8 / 20.0 | 15 | G165G (GGT→GGG) | ycfH | metal‑dependent hydrolase |
| Marginal new junction evidence (lowest skew 10 of 16 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 3491440 | 39 (0.970) | 4 (0.110) | 4/152 | 2.5 | 9.5% | coding (254/1374 nt) | cysG | siroheme synthase CysG |
| ? | NZ_CP009273 | = 3491445 | 41 (1.140) | coding (259/1374 nt) | cysG | siroheme synthase CysG | |||||
| * | ? | NZ_CP009273 | = 3920789 | 36 (0.890) | 3 (0.090) | 3/146 | 2.7 | 8.5% | coding (275/993 nt) | asnA | aspartate‑‑ammonia ligase |
| ? | NZ_CP009273 | = 3920804 | 34 (0.980) | coding (290/993 nt) | asnA | aspartate‑‑ammonia ligase | |||||
| * | ? | NZ_CP009273 | 3920778 = | 36 (0.890) | 3 (0.090) | 3/146 | 2.7 | 8.5% | coding (264/993 nt) | asnA | aspartate‑‑ammonia ligase |
| ? | NZ_CP009273 | 3920817 = | 34 (0.980) | coding (303/993 nt) | asnA | aspartate‑‑ammonia ligase | |||||
| * | ? | NZ_CP009273 | = 4017585 | 53 (1.320) | 3 (0.080) | 3/154 | 2.8 | 4.8% | coding (672/783 nt) | tatD | 3'‑5' ssDNA/RNA exonuclease TatD |
| ? | NZ_CP009273 | = 4017640 | 70 (1.920) | coding (727/783 nt) | tatD | 3'‑5' ssDNA/RNA exonuclease TatD | |||||
| * | ? | NZ_CP009273 | = 3874015 | 38 (0.940) | 3 (0.080) | 3/150 | 2.8 | 8.1% | coding (567/1074 nt) | recF | DNA replication/repair protein RecF |
| ? | NZ_CP009273 | = 3874077 | 35 (0.990) | coding (505/1074 nt) | recF | DNA replication/repair protein RecF | |||||
| * | ? | NZ_CP009273 | = 3769084 | 72 (1.790) | 3 (0.080) | 3/150 | 2.8 | 4.9% | coding (153/588 nt) | mtlR | mannitol operon repressor MtlR |
| ? | NZ_CP009273 | = 3769168 | 53 (1.490) | coding (237/588 nt) | mtlR | mannitol operon repressor MtlR | |||||
| * | ? | NZ_CP009273 | = 3528874 | 48 (1.190) | 3 (0.080) | 3/150 | 2.8 | 6.0% | coding (354/1353 nt) | envZ | two‑component system sensor histidine kinase EnvZ |
| ? | NZ_CP009273 | = 3528992 | 52 (1.470) | coding (236/1353 nt) | envZ | two‑component system sensor histidine kinase EnvZ | |||||
| * | ? | NZ_CP009273 | = 2325337 | 30 (0.740) | 3 (0.080) | 3/154 | 2.8 | 9.5% | pseudogene (2455/4515 nt) | BW25113_RS11635 | alpha‑2‑macroglobulin family protein |
| ? | NZ_CP009273 | = 2325338 | 30 (0.820) | pseudogene (2454/4515 nt) | BW25113_RS11635 | alpha‑2‑macroglobulin family protein | |||||
| * | ? | NZ_CP009273 | = 2312726 | 21 (0.520) | 3 (0.080) | 3/154 | 2.8 | 12.5% | coding (630/2850 nt) | rcsC | two‑component system sensor histidine kinase RcsC |
| ? | NZ_CP009273 | = 2312743 | 23 (0.630) | coding (613/2850 nt) | rcsC | two‑component system sensor histidine kinase RcsC | |||||
| * | ? | NZ_CP009273 | 727836 = | NA (NA) | 3 (0.080) | 3/154 | 2.8 | 17.2% | coding (2798/4194 nt) | rhsC | rhs element protein RhsC |
| ? | NZ_CP009273 | 727859 = | 16 (0.400) | coding (2821/4194 nt) | rhsC | rhs element protein RhsC | |||||