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 |
| JC | USA300TCH1516_ALE | 62,817 | +TCAATT | 100% | intergenic (‑284/+229) | USA300TCH1516_00053 ← / ← speG | hypothetical protein/Spermidine N(1)‑acetyltransferase |
| RA | USA300TCH1516_ALE | 111,512 | A→G | 24.0% | S194S (TCA→TCG) | USA300HOU_RS00520 → | putative lipoprotein |
| RA | USA300TCH1516_ALE | 111,516 | C→A | 21.8% | Q196K (CAA→AAA) | USA300HOU_RS00520 → | putative lipoprotein |
| RA | USA300TCH1516_ALE | 178,705 | C→A | 23.4% | P227Q (CCA→CAA) | capD → | UDP‑glucose 4‑epimerase |
| RA | USA300TCH1516_ALE | 512,643 | A→G | 44.1% | intergenic (+711/‑6052) | recR → / → speA_2 | Recombination protein RecR/Arginine decarboxylase |
| RA | USA300TCH1516_ALE | 591,178 | C→T | 42.4% | A465V (GCA→GTA) | rpoC → | DNA‑directed RNA polymerase subunit beta' |
| RA | USA300TCH1516_ALE | 818,312 | T→A | 10.9% | N97K (AAT→AAA) | USA300HOU_RS04005 → | hypothetical protein |
| RA | USA300TCH1516_ALE | 1,279,469 | A→G | 15.0% | V115V (GTA→GTG) | cdsA → | Phosphatidate cytidylyltransferase |
| 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 | 1,646,189 | G→C | 100% | A155G (GCA→GGA) | ypdF ← | Aminopeptidase YpdF |
| 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 | 2,372,764 | Δ1 bp | 21.9% | coding (1012/1335 nt) | pbuG ← | Guanine/hypoxanthine permease PbuG |
| RA | USA300TCH1516_ALE | 2,372,883 | T→A | 32.7% | D298V (GAT→GTT) | pbuG ← | Guanine/hypoxanthine permease PbuG |
| RA | USA300TCH1516_ALE | 2,373,697:1 | +T | 20.0% | coding (79/1335 nt) | pbuG ← | Guanine/hypoxanthine permease PbuG |
| RA | USA300TCH1516_ALE | 2,519,951 | T→G | 11.3% | P227P (CCA→CCC) | narG ← | Respiratory nitrate reductase 1 alpha chain |
| RA | USA300TCH1516_ALE | 2,532,298 | A→T | 100% | T15T (ACA→ACT) | femA_3 → | Aminoacyltransferase FemA |
| RA | USA300TCH1516_ALE | 2,633,188 | A→G | 10.5% | T920T (ACT→ACC) | fnbA_2 ← | Fibronectin‑binding protein A |
| RA | USA300TCH1516_ALE | 2,830,273 | G→A | 18.5% | intergenic (+101/+346) | icaC → / ← lipA_2 | putative poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein/Lipase 1 |
| RA | USA300TCH1516_ALE | 2,858,458 | T→A | 9.9% | F204L (TTT→TTA) | nhoA → | N‑hydroxyarylamine O‑acetyltransferase |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 512620 = | 27 (0.960) | 9 (0.460) +40 bp |
9/180 | NT | 32.6% | 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 | 2085296 = | 18 (0.640) | 6 (0.240) | 6/232 | NT | 26.6% | coding (173/201 nt) | hlb_1 | Phospholipase C |
| ? | USA300TCH1516_ALE | = 2128343 | 17 (0.680) | coding (1/825 nt) | hlb_2 | Phospholipase C | |||||