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 181 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 66.7% | 6.3 / 14.2 | 21 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 60.0% | 4.6 / 47.6 | 40 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 2,380,347 | 0 | T | A | 60.0% | 1.4 / 19.8 | 21 | intergenic (+37/‑66) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 59.5% | ‑3.1 / 97.7 | 84 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 1,350,458 | 0 | T | G | 59.3% | 20.8 / 31.8 | 27 | T304P (ACC→CCC) | sapA | peptide ABC transporter substrate‑binding protein SapA |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 59.0% | 12.6 / 100.6 | 84 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,371,314 | 0 | G | A | 56.0% | 4.4 / 26.8 | 25 | F475F (TTC→TTT) | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| * | NZ_CP009273 | 766,353 | 0 | T | G | 54.5% | 16.7 / 24.9 | 22 | intergenic (+286/‑561) | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
| * | NZ_CP009273 | 3,341,237 | 0 | T | G | 54.5% | 34.4 / 42.1 | 33 | V255G (GTG→GGG) | rapZ | RNase adapter RapZ |
| * | NZ_CP009273 | 2,033,562 | 0 | T | A | 53.8% | 5.7 / 17.1 | 13 | Y202N (TAT→AAT) | msrP | protein‑methionine‑sulfoxide reductase catalytic subunit MsrP |
| * | NZ_CP009273 | 2,042,202 | 0 | A | C | 53.8% | 7.1 / 14.8 | 13 | T1262P (ACC→CCC) | yeeJ | inverse autotransporter adhesin YeeJ |
| * | NZ_CP009273 | 1,548,257 | 0 | T | G | 53.3% | 28.3 / 35.8 | 30 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
| * | NZ_CP009273 | 2,149,203 | 0 | A | C | 53.3% | 13.0 / 18.4 | 15 | T154P (ACC→CCC) | mdtB | multidrug efflux RND transporter permease subunit MdtB |
| * | NZ_CP009273 | 3,090,826 | 0 | T | G | 53.3% | 24.3 / 34.1 | 30 | G67G (GGT→GGG) | hemW | radical SAM family heme chaperone HemW |
| * | NZ_CP009273 | 3,738,361 | 0 | T | G | 52.5% | 26.6 / 40.5 | 40 | G66G (GGT→GGG) | yiaN | 2,3‑diketo‑L‑gulonate transporter large permease YiaN |
| * | NZ_CP009273 | 2,380,362 | 0 | C | T | 51.8% | 7.7 / 37.5 | 27 | intergenic (+52/‑51) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 2,562,043 | 0 | A | C | 51.8% | 22.6 / 35.4 | 27 | G276G (GGT→GGG) | eutG | ethanolamine utilization ethanol dehydrogenase EutG |
| * | NZ_CP009273 | 899,438 | 0 | A | C | 51.4% | 31.9 / 49.8 | 35 | G162G (GGT→GGG) | ybjP | lipoprotein |
| * | NZ_CP009273 | 3,171,107 | 0 | C | A | 51.0% | 24.0 / 68.5 | 49 | E55* (GAG→TAG) | nudF | ADP‑ribose diphosphatase |
| * | NZ_CP009273 | 687,303 | 0 | A | G | 50.0% | 43.8 / 13.5 | 46 | intergenic (‑63/+27) | corC/ybeY | CNNM family magnesium/cobalt transport protein CorC/rRNA maturation RNase YbeY |
| Marginal new junction evidence (lowest skew 10 of 18 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 729706 | NA (NA) | 5 (0.100) | 5/150 | 3.2 | NA | pseudogene (103/1506 nt) | BW25113_RS03635 | RHS repeat protein |
| ? | NZ_CP009273 | = 729729 | NA (NA) | pseudogene (126/1506 nt) | BW25113_RS03635 | RHS repeat protein | |||||
| * | ? | NZ_CP009273 | = 282361 | 97 (1.820) | 4 (0.090) | 4/146 | 3.5 | 4.7% | coding (1256/1383 nt) | yagG | MFS transporter |
| ? | NZ_CP009273 | = 282393 | 78 (1.670) | coding (1288/1383 nt) | yagG | MFS transporter | |||||
| * | ? | NZ_CP009273 | = 2886946 | 23 (0.430) | 4 (0.080) | 4/154 | 3.7 | 11.9% | coding (931/1272 nt) | ygcN | FAD‑dependent oxidoreductase |
| ? | NZ_CP009273 | = 2886968 | 38 (0.770) | coding (953/1272 nt) | ygcN | FAD‑dependent oxidoreductase | |||||
| * | ? | NZ_CP009273 | = 2688401 | 39 (0.820) | 5 (0.100) +GCCCT |
3/138 | 3.8 | 11.0% | coding (502/3888 nt) | purL | phosphoribosylformylglycinamidine synthase |
| ? | NZ_CP009273 | 2688402 = | 42 (0.790) | coding (501/3888 nt) | purL | phosphoribosylformylglycinamidine synthase | |||||
| * | ? | NZ_CP009273 | 3756668 = | NA (NA) | 3 (0.060) | 3/146 | 3.9 | 20.8% | coding (1126/4134 nt) | rhsA | RHS element protein RhsA |
| ? | NZ_CP009273 | 3759111 = | 13 (0.240) | coding (3569/4134 nt) | rhsA | RHS element protein RhsA | |||||
| * | ? | NZ_CP009273 | 3610791 = | 44 (0.830) | 3 (0.070) | 3/142 | 3.9 | 4.6% | coding (417/765 nt) | nikD | nickel import ATP‑binding protein NikD |
| ? | NZ_CP009273 | 3611111 = | 88 (1.940) | coding (737/765 nt) | nikD | nickel import ATP‑binding protein NikD | |||||
| * | ? | NZ_CP009273 | 730478 = | 11 (0.210) | 3 (0.060) | 3/146 | 3.9 | 23.7% | pseudogene (875/1506 nt) | BW25113_RS03635 | RHS repeat protein |
| ? | NZ_CP009273 | 3613677 = | NA (NA) | coding (1126/4236 nt) | rhsB | rhs element protein RhsB | |||||
| * | ? | NZ_CP009273 | 348977 = | 109 (2.050) | 4 (0.090) | 3/142 | 3.9 | 4.0% | coding (561/1887 nt) | prpE | propionate‑‑CoA ligase |
| ? | NZ_CP009273 | 349105 = | 101 (2.220) | coding (689/1887 nt) | prpE | propionate‑‑CoA ligase | |||||
| * | ? | NZ_CP009273 | 4501747 = | 41 (0.770) | 3 (0.060) | 3/150 | 4.0 | 6.7% | coding (485/957 nt) | fecD | Fe(3+) dicitrate ABC transporter permease subunit FecD |
| ? | NZ_CP009273 | 4501885 = | 46 (0.960) | coding (347/957 nt) | fecD | Fe(3+) dicitrate ABC transporter permease subunit FecD | |||||
| * | ? | NZ_CP009273 | 4306900 = | 51 (0.960) | 3 (0.060) | 3/150 | 4.0 | 5.4% | coding (136/1137 nt) | phnM | alpha‑D‑ribose 1‑methylphosphonate 5‑triphosphate diphosphatase |
| ? | NZ_CP009273 | 4306937 = | 60 (1.250) | coding (99/1137 nt) | phnM | alpha‑D‑ribose 1‑methylphosphonate 5‑triphosphate diphosphatase | |||||