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 | 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 | 104,186 | T→C | V6A (GTA→GCA) | USA300HOU_RS00495 → | hypothetical protein |
| RA | USA300TCH1516_ALE | 110,225 | T→C | G28G (GGT→GGC) | USA300HOU_RS00515 → | putative lipoprotein |
| RA | USA300TCH1516_ALE | 135,594 | C→T | P87L (CCA→CTA) | arcB_1 → | Delta(1)‑pyrroline‑2‑carboxylate reductase |
| RA | USA300TCH1516_ALE | 210,283 | G→A | R2225Q (CGG→CAG) | grsB → | Gramicidin S synthase 2 |
| RA | USA300TCH1516_ALE | 656,179 | C→T | P38S (CCA→TCA) | USA300HOU_RS03135 → | hypothetical protein |
| RA | USA300TCH1516_ALE | 722,264 | (A)8→7 | coding (235/798 nt) | fepC → | Ferric enterobactin transport ATP‑binding protein FepC |
| RA | USA300TCH1516_ALE | 921,243 | T→C | Y220Y (TAT→TAC) | USA300HOU_RS04565 → | hypothetical protein |
| RA | USA300TCH1516_ALE | 1,032,209 | A→G | S399S (TCA→TCG) | yfkN_2 → | Trifunctional nucleotide phosphoesterase protein YfkN |
| RA | USA300TCH1516_ALE | 1,324,256 | (A)9→8 | coding (1028/2010 nt) | mutL → | DNA mismatch repair protein MutL |
| RA | USA300TCH1516_ALE | 1,416,458 | A→T | I216N (ATT→AAT) | oppD_4 ← | Oligopeptide transport ATP‑binding protein OppD |
| RA | USA300TCH1516_ALE | 1,479,935 | T→C | T7363T (ACA→ACG) | ebh_1 ← | Extracellular matrix‑binding protein ebh |
| 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 | 1,744,428 | T→C | K82E (AAA→GAA) | apt ← | Adenine phosphoribosyltransferase |
| RA | USA300TCH1516_ALE | 1,834,002 | T→C | V133A (GTA→GCA) | osmC → | Peroxiredoxin OsmC |
| RA | USA300TCH1516_ALE | 1,874,199 | T→C | T100A (ACT→GCT) | USA300HOU_RS09305 ← | hypothetical protein |
| RA | USA300TCH1516_ALE | 1,996,168 | A→G | noncoding (47/75 nt) | USA300TCH1516_01859 ← | tRNA‑Gly |
| RA | USA300TCH1516_ALE | 2,010,363 | C→T | C146Y (TGT→TAT) | USA300HOU_RS10125 ← | Putative multidrug export ATP‑binding/permease protein |
| RA | USA300TCH1516_ALE | 2,018,810 | (T)7→6 | coding (109/810 nt) | mgt ← | Monofunctional glycosyltransferase |
| RA | USA300TCH1516_ALE | 2,102,618 | T→C | intergenic (‑78/+238) | USA300HOU_RS10625 ← / ← USA300HOU_RS10630 | hypothetical protein/hypothetical protein |
| RA | USA300TCH1516_ALE | 2,109,450 | T→C | T179A (ACA→GCA) | USA300HOU_RS10675 ← | hypothetical protein |
| RA | USA300TCH1516_ALE | 2,220,870 | (A)6→7 | intergenic (‑521/+41) | USA300HOU_RS11345 ← / ← atpC | hypothetical protein/ATP synthase epsilon chain |
| RA | USA300TCH1516_ALE | 2,224,476 | T→C | P233P (CCA→CCG) | atpA ← | ATP synthase subunit alpha |
| RA | USA300TCH1516_ALE | 2,247,097 | (T)6→7 | intergenic (‑118/‑306) | bltD_2 ← / → coaW | Spermine/spermidine acetyltransferase/Type II pantothenate kinase |
| RA | USA300TCH1516_ALE | 2,279,705 | G→A | A943V (GCA→GTA) | ebh_3 ← | Extracellular matrix‑binding protein ebh |
| RA | USA300TCH1516_ALE | 2,532,298 | A→T | T15T (ACA→ACT) | femA_3 → | Aminoacyltransferase FemA |
| RA | USA300TCH1516_ALE | 2,698,127 | C→T | G480G (GGC→GGT) | copA → | Copper‑exporting P‑type ATPase A |
| RA | USA300TCH1516_ALE | 2,825,493 | T→C | intergenic (‑308/+540) | cap8A_2 ← / ← icaR | Capsular polysaccharide type 8 biosynthesis protein cap8A/Biofilm operon icaADBC HTH‑type negative transcriptional regulator IcaR |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 512620 = | 31 (1.270) | 13 (0.750) +40 bp |
11/200 | 0.5 | 38.2% | intergenic (+688/‑6075) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| ? | USA300TCH1516_ALE | 1998278 = | 28 (1.150) | intergenic (‑6/+3329) | USA300TCH1516_01882/USA300TCH1516_01883 | tRNA‑Val/tRNA‑Ala | |||||
| * | ? | USA300TCH1516_ALE | 895785 = | 19 (0.780) | 13 (0.610) | 12/246 | 0.7 | 42.9% | coding (806/822 nt) | metQ_2 | Methionine‑binding lipoprotein MetQ |
| ? | USA300TCH1516_ALE | = 909740 | 18 (0.840) | intergenic (‑663/‑371) | USA300HOU_RS04500/csbD_1 | hypothetical protein/Stress response protein CsbD | |||||
| * | ? | USA300TCH1516_ALE | 2085296 = | 24 (0.980) | 13 (0.590) | 12/252 | 0.7 | 40.9% | coding (173/201 nt) | hlb_1 | Phospholipase C |
| ? | USA300TCH1516_ALE | = 2128343 | 16 (0.730) | coding (1/825 nt) | hlb_2 | Phospholipase C | |||||