mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 60 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,154,068 | 0 | T | G | 72.7% | ‑0.1 / 11.9 | 22 | G248G (GGT→GGG) | ptsG | PTS glucose transporter subunit IIBC |
| * | NZ_CP009273 | 2,141,214 | 0 | T | G | 70.6% | ‑0.1 / 11.4 | 17 | G20G (GGT→GGG) | yegD | molecular chaperone |
| * | NZ_CP009273 | 3,806,432 | 0 | A | C | 64.7% | 8.2 / 14.1 | 17 | T114T (ACA→ACC) | coaBC | bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate‑‑cysteine ligase CoaBC |
| * | NZ_CP009273 | 349,999 | 0 | T | G | 61.9% | 5.4 / 21.6 | 21 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NZ_CP009273 | 1,125,825 | 0 | T | C | 61.1% | 9.4 / 15.3 | 18 | G165G (GGA→GGG) | flgA | flagellar basal body P‑ring formation chaperone FlgA |
| * | NZ_CP009273 | 4,558,321 | 0 | T | G | 58.8% | 12.2 / 19.5 | 17 | T6P (ACC→CCC) | mdtM | multidrug efflux MFS transporter MdtM |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 57.9% | ‑5.6 / 18.8 | 19 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 1,598,180 | 0 | T | G | 57.1% | 8.8 / 19.7 | 23 | V302G (GTG→GGG) | lsrC | autoinducer 2 ABC transporter permease LsrC |
| * | NZ_CP009273 | 3,220,108 | 0 | T | G | 57.1% | 8.4 / 19.2 | 21 | G172G (GGT→GGG) | ygjI | amino acid permease |
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 56.7% | 11.2 / 39.2 | 30 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 702,597 | 0 | T | G | 56.2% | 9.9 / 15.0 | 16 | V350G (GTG→GGG) | glnS | glutamine‑‑tRNA ligase |
| * | NZ_CP009273 | 3,126,661 | 0 | T | G | 56.2% | 3.8 / 18.9 | 16 | H219P (CAC→CCC) | yghS | dTMP kinase |
| * | NZ_CP009273 | 1,738,312 | 0 | T | G | 55.6% | 12.2 / 16.0 | 18 | V200G (GTG→GGG) | mdtK | multidrug efflux MATE transporter MdtK |
| * | NZ_CP009273 | 2,380,357 | 0 | A | T | 55.6% | 8.3 / 23.6 | 18 | intergenic (+47/‑56) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 68,443 | 0 | T | G | 54.5% | 6.1 / 10.5 | 11 | G202G (GGT→GGG) | yabI | DedA family protein |
| * | NZ_CP009273 | 964,402 | 0 | T | G | 54.5% | 8.9 / 11.9 | 11 | V194G (GTA→GGA) | lpxK | tetraacyldisaccharide 4'‑kinase |
| * | NZ_CP009273 | 1,853,942 | 0 | A | C | 54.5% | 4.1 / 12.0 | 11 | V182G (GTA→GGA) | ydjK | MFS transporter |
| * | NZ_CP009273 | 760,187 | 0 | G | C | 53.8% | 1.9 / 11.4 | 13 | P184P (CCG→CCC) | sucD | succinate‑‑CoA ligase subunit alpha |
| * | NZ_CP009273 | 902,674 | 0 | G | A | 53.8% | 0.4 / 13.4 | 13 | F355F (TTC→TTT) | ybjT | SDR family oxidoreductase |
| * | NZ_CP009273 | 3,753,744 | 0 | A | C | 53.8% | 5.3 / 10.5 | 13 | V289G (GTG→GGG) | selA | L‑seryl‑tRNA(Sec) selenium transferase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | = 192125 | 22 (0.810) | 4 (0.160) | 4/154 | 1.8 | 16.4% | coding (733/759 nt) | ispU | (2E,6E)‑farnesyl‑diphosphate‑specific ditrans,polycis‑undecaprenyl‑diphosphate synthase |
| ? | NZ_CP009273 | = 192230 | 21 (0.850) | coding (67/858 nt) | cdsA | phosphatidate cytidylyltransferase | |||||
| * | ? | NZ_CP009273 | = 4437215 | 32 (1.180) | 3 (0.130) | 3/150 | 2.1 | 9.1% | coding (3287/3780 nt) | tamB | autotransporter assembly complex protein TamB |
| ? | NZ_CP009273 | = 4437296 | 32 (1.330) | coding (3368/3780 nt) | tamB | autotransporter assembly complex protein TamB | |||||
| * | ? | NZ_CP009273 | 4399442 = | 23 (0.850) | 3 (0.130) | 3/150 | 2.1 | 12.4% | coding (351/732 nt) | rlmB | 23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| ? | NZ_CP009273 | 4399525 = | 22 (0.920) | coding (434/732 nt) | rlmB | 23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NZ_CP009273 | = 3209533 | 20 (0.740) | 3 (0.130) | 3/150 | 2.1 | 14.1% | coding (318/765 nt) | nfeF | NADPH‑dependent ferric chelate reductase |
| ? | NZ_CP009273 | = 3209595 | 19 (0.790) | coding (256/765 nt) | nfeF | NADPH‑dependent ferric chelate reductase | |||||
| * | ? | NZ_CP009273 | 3122373 = | 38 (1.400) | 4 (0.170) | 3/148 | 2.1 | 10.9% | coding (743/765 nt) | glcC | transcriptional regulator GlcC |
| ? | NZ_CP009273 | 3122512 = | 32 (1.350) | coding (1027/1137 nt) | yghO | hypothetical protein | |||||
| * | ? | NZ_CP009273 | 322260 = | 34 (1.250) | 3 (0.130) | 3/150 | 2.1 | 10.0% | coding (699/1671 nt) | betA | choline dehydrogenase |
| ? | NZ_CP009273 | 322363 = | 24 (1.000) | coding (596/1671 nt) | betA | choline dehydrogenase | |||||