mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000731 | 81 | N→G | 100% | intergenic (–/‑151) | – / → repA | –/replication protein A |
| JC | CP000731 | 6,552 | +28 bp | 100% | intergenic (+1069/‑419) | cadX → / → USA300HOU_pUSA300HOUMR0010 | cadmium efflux regulator/MarR family transcriptional regulator |
| RA | CP000731 | 25,663 | Δ1 bp | 100% | coding (316/333 nt) | USA300HOU_pUSA300HOUMR0031 → | hypothetical protein |
| RA | USA300TCH1516_ALE | 512,643 | A→G | 48.7% | intergenic (+711/‑6052) | recR → / → speA_2 | Recombination protein RecR/Arginine decarboxylase |
| RA | USA300TCH1516_ALE | 748,768 | A→G | 19.5% | I255V (ATT→GTT) | oxyR → | Hydrogen peroxide‑inducible genes activator |
| RA | USA300TCH1516_ALE | 949,407 | G→T | 12.5% | intergenic (+194/‑222) | USA300HOU_RS04730 → / → yugI_2 | Putative peptidyl‑prolyl cis‑trans isomerase/General stress protein 13 |
| RA | USA300TCH1516_ALE | 1,201,454 | T→C | 18.2% | V144A (GTT→GCT) | ileS → | Isoleucine‑‑tRNA ligase |
| RA | USA300TCH1516_ALE | 1,416,458 | A→T | 100% | I216N (ATT→AAT) | oppD_4 ← | Oligopeptide transport ATP‑binding protein OppD |
| RA | USA300TCH1516_ALE | 1,513,930 | A→T | 100% | L413F (TTA→TTT) | USA300HOU_RS07375 → | hypothetical protein |
| RA | USA300TCH1516_ALE | 1,576,651 | A→G | 23.6% | F289S (TTC→TCC) | USA300HOU_RS07705 ← | Glycyl‑glycine endopeptidase ALE‑1 |
| RA | USA300TCH1516_ALE | 1,646,189 | G→C | 100% | A155G (GCA→GGA) | ypdF ← | Aminopeptidase YpdF |
| RA | USA300TCH1516_ALE | 1,884,522 | C→T | 11.1% | A233T (GCC→ACC) | ebh_2 ← | Extracellular matrix‑binding protein ebh |
| RA | USA300TCH1516_ALE | 2,010,363 | C→T | 100% | C146Y (TGT→TAT) | USA300HOU_RS10125 ← | Putative multidrug export ATP‑binding/permease protein |
| RA | USA300TCH1516_ALE | 2,279,705 | G→A | 100% | A943V (GCA→GTA) | ebh_3 ← | Extracellular matrix‑binding protein ebh |
| RA | USA300TCH1516_ALE | 2,366,219 | G→A | 11.7% | A46V (GCA→GTA) | rplN ← | 50S ribosomal protein L14 |
| RA | USA300TCH1516_ALE | 2,484,799 | G→A | 10.2% | A295V (GCG→GTG) | mqo1 ← | putative malate:quinone oxidoreductase 1 |
| RA | USA300TCH1516_ALE | 2,504,803 | T→C | 12.9% | intergenic (+107/+297) | USA300HOU_RS12890 → / ← gltT | hypothetical protein/Proton/sodium‑glutamate symport protein |
| RA | USA300TCH1516_ALE | 2,532,298 | A→T | 100% | T15T (ACA→ACT) | femA_3 → | Aminoacyltransferase FemA |
| RA | USA300TCH1516_ALE | 2,596,868 | A→T | 9.7% | Y212N (TAC→AAC) | nikA_2 ← | Nickel‑binding periplasmic protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 512620 = | 18 (0.830) | 9 (0.600) +40 bp |
9/180 | NT | 42.0% | intergenic (+688/‑6075) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| ? | USA300TCH1516_ALE | 1998278 = | NA (NA) | intergenic (‑6/+3329) | USA300TCH1516_01882/USA300TCH1516_01883 | tRNA‑Val/tRNA‑Ala | |||||