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 199 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,548,257 | 0 | T | G | 55.2% | 16.0 / 19.7 | 29 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
| * | NZ_CP009273 | 595,032 | 0 | T | G | 54.2% | ‑4.5 / 16.9 | 24 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 2,141,214 | 0 | T | G | 53.8% | 19.7 / 32.9 | 39 | G20G (GGT→GGG) | yegD | molecular chaperone |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 51.3% | 19.5 / 59.9 | 40 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 765,675 | 0 | A | C | 51.2% | 28.3 / 38.0 | 42 | T748P (ACC→CCC) | mngB | mannosylglycerate hydrolase |
| * | NZ_CP009273 | 822,955 | 0 | T | G | 51.2% | 24.7 / 37.0 | 41 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 4,431,963 | 0 | A | G | 51.0% | 72.8 / 131.6 | 96 | S11P (TCC→CCC) | msrA | peptide‑methionine (S)‑S‑oxide reductase MsrA |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 50.0% | 22.9 / 10.4 | 42 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 4,061,105 | 0 | A | G | 50.0% | 12.1 / 19.2 | 28 | L511P (CTG→CCG) | yihQ | sulfoquinovosidase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 49.5% | 71.2 / 69.2 | 92 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,476,747 | 0 | T | A | 48.8% | 45.2 / 22.1 | 43 | L24F (TTA→TTT) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 48.4% | 78.5 / 66.3 | 92 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 3,941,183 | 0 | T | G | 47.8% | 31.9 / 11.5 | 46 | T49P (ACC→CCC) | hdfR | HTH‑type transcriptional regulator HdfR |
| * | NZ_CP009273 | 822,963 | 0 | T | G | 47.7% | 4.1 / 35.2 | 44 | D492A (GAC→GCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 2,380,342 | 0 | C | A | 47.5% | 57.1 / 13.3 | 40 | intergenic (+32/‑71) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 47.3% | 172.4 / 77.5 | 112 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 3,171,107 | 0 | C | A | 46.7% | 97.3 / 32.4 | 60 | E55* (GAG→TAG) | nudF | ADP‑ribose diphosphatase |
| * | NZ_CP009273 | 799,325 | 0 | G | T | 46.5% | 52.9 / 23.1 | 43 | V123L (GTG→TTG) | ybhJ | hydratase |
| * | NZ_CP009273 | 585,386 | 0 | A | G | 46.4% | 23.2 / 10.9 | 28 | L342P (CTC→CCC) | nfrA | bacteriophage adsorption protein NfrA |
| * | NZ_CP009273 | 2,380,362 | 0 | C | T | 46.3% | 37.4 / 29.9 | 41 | intergenic (+52/‑51) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| Marginal new junction evidence (lowest skew 10 of 21 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 4321902 = | 104 (1.520) | 4 (0.070) | 4/140 | 3.8 | 4.4% | intergenic (+81/‑31) | proP/pmrR | glycine betaine/L‑proline transporter ProP/LpxT activity modulator PmrR |
| ? | NZ_CP009273 | 4321930 = | 83 (1.380) | intergenic (+109/‑3) | proP/pmrR | glycine betaine/L‑proline transporter ProP/LpxT activity modulator PmrR | |||||
| * | ? | NZ_CP009273 | 2563838 = | 14 (0.200) | 5 (0.080) | 4/138 | 3.8 | 18.5% | coding (1273/1404 nt) | eutE | aldehyde dehydrogenase EutE |
| ? | NZ_CP009273 | 2563931 = | 32 (0.540) | coding (1180/1404 nt) | eutE | aldehyde dehydrogenase EutE | |||||
| * | ? | NZ_CP009273 | 916477 = | 28 (0.410) | 4 (0.060) | 4/144 | 3.9 | 13.3% | coding (675/1947 nt) | macB | macrolide ABC transporter ATP‑binding protein/permease MacB |
| ? | NZ_CP009273 | 916512 = | 27 (0.440) | coding (710/1947 nt) | macB | macrolide ABC transporter ATP‑binding protein/permease MacB | |||||
| * | ? | NZ_CP009273 | 4461088 = | 92 (1.340) | 4 (0.060) | 4/152 | 4.0 | 4.4% | coding (177/462 nt) | pyrI | aspartate carbamoyltransferase regulatory subunit |
| ? | NZ_CP009273 | 4461097 = | 86 (1.320) | coding (168/462 nt) | pyrI | aspartate carbamoyltransferase regulatory subunit | |||||
| * | ? | NZ_CP009273 | 3259730 = | 104 (1.520) | 4 (0.060) | 4/154 | 4.1 | 3.8% | coding (695/939 nt) | tdcA | transcriptional regulator TdcA |
| ? | NZ_CP009273 | 3259738 = | 100 (1.510) | coding (687/939 nt) | tdcA | transcriptional regulator TdcA | |||||
| * | ? | NZ_CP009273 | 3256491 = | 68 (0.990) | 4 (0.070) | 3/138 | 4.2 | 5.9% | coding (529/1209 nt) | tdcD | propionate kinase |
| ? | NZ_CP009273 | 3256545 = | 68 (1.150) | coding (475/1209 nt) | tdcD | propionate kinase | |||||
| * | ? | NZ_CP009273 | 3202563 = | 56 (0.820) | 3 (0.050) | 3/140 | 4.2 | 5.7% | coding (1181/1464 nt) | ttdT | L‑tartrate/succinate antiporter |
| ? | NZ_CP009273 | 3202626 = | 50 (0.830) | coding (1244/1464 nt) | ttdT | L‑tartrate/succinate antiporter | |||||
| * | ? | NZ_CP009273 | = 2807274 | 71 (1.040) | 3 (0.050) | 3/140 | 4.2 | 5.0% | coding (1300/1539 nt) | emrB | multidrug efflux MFS transporter permease subunit EmrB |
| ? | NZ_CP009273 | = 2807314 | 51 (0.850) | coding (1340/1539 nt) | emrB | multidrug efflux MFS transporter permease subunit EmrB | |||||
| * | ? | NZ_CP009273 | 2707178 = | 47 (0.690) | 3 (0.050) | 3/138 | 4.2 | 5.9% | coding (924/1335 nt) | srmB | ATP‑dependent RNA helicase SrmB |
| ? | NZ_CP009273 | 2707279 = | 56 (0.950) | coding (1025/1335 nt) | srmB | ATP‑dependent RNA helicase SrmB | |||||
| * | ? | NZ_CP009273 | = 55126 | 117 (1.710) | 4 (0.070) | 3/140 | 4.2 | 3.8% | coding (1984/2355 nt) | lptD | LPS assembly protein LptD |
| ? | NZ_CP009273 | = 55116 | 100 (1.670) | coding (1994/2355 nt) | lptD | LPS assembly protein LptD | |||||