breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
Predicted mutations | ||||||
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evidence | seq id | position | mutation | annotation | gene | description |
RA | CP000731 | 81 | N→G | intergenic (–/‑151) | – / → repA | –/replication protein A |
JC | CP000731 | 6,552 | +28 bp | intergenic (+1069/‑419) | cadX → / → USA300HOU_pUSA300HOUMR0010 | cadmium efflux regulator/MarR family transcriptional regulator |
RA | CP000731 | 25,669 | (A)7→6 | coding (322/333 nt) | USA300HOU_pUSA300HOUMR0031 → | hypothetical protein |
RA | USA300TCH1516_ALE | 1,416,458 | A→T | I216N (ATT→AAT) | oppD_4 ← | Oligopeptide transport ATP‑binding protein OppD |
RA | USA300TCH1516_ALE | 1,513,930 | A→T | L413F (TTA→TTT) | USA300HOU_RS07375 → | hypothetical protein |
RA | USA300TCH1516_ALE | 1,646,189 | G→C | A155G (GCA→GGA) | ypdF ← | Aminopeptidase YpdF |
RA | USA300TCH1516_ALE | 2,010,363 | C→T | C146Y (TGT→TAT) | USA300HOU_RS10125 ← | Putative multidrug export ATP‑binding/permease protein |
RA | USA300TCH1516_ALE | 2,028,124 | G→A | P174L (CCG→CTG) | USA300HOU_RS10230 ← | hypothetical protein |
RA | USA300TCH1516_ALE | 2,279,705 | G→A | A943V (GCA→GTA) | ebh_3 ← | Extracellular matrix‑binding protein ebh |
RA | USA300TCH1516_ALE | 2,372,751 | A→T | L342* (TTA→TAA) | pbuG ← | Guanine/hypoxanthine permease PbuG |
RA | USA300TCH1516_ALE | 2,462,758 | G→A | A70T (GCA→ACA) | USA300HOU_RS12680 → | Putative 3‑methyladenine DNA glycosylase |
RA | USA300TCH1516_ALE | 2,532,298 | A→T | T15T (ACA→ACT) | femA_3 → | Aminoacyltransferase FemA |
Unassigned new junction evidence | |||||||||||
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seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | USA300TCH1516_ALE | 512620 = | 26 (1.050) | 22 (1.240) +40 bp |
19/200 | 0.1 | 54.3% | 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 | |||||
* | ? | USA300TCH1516_ALE | 895785 = | 25 (1.010) | 7 (0.320) | 5/246 | 2.1 | 27.0% | coding (806/822 nt) | metQ_2 | Methionine‑binding lipoprotein MetQ |
? | USA300TCH1516_ALE | = 909740 | 16 (0.730) | intergenic (‑663/‑371) | USA300HOU_RS04500/csbD_1 | hypothetical protein/Stress response protein CsbD | |||||
* | ? | USA300TCH1516_ALE | 2085296 = | 20 (0.810) | 10 (0.450) | 8/252 | 1.4 | 32.8% | coding (173/201 nt) | hlb_1 | Phospholipase C |
? | USA300TCH1516_ALE | = 2128343 | 23 (1.030) | coding (1/825 nt) | hlb_2 | Phospholipase C |