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 | position | mutation | freq | annotation | gene | description |
| RA | 16,984 | T→C | 5.4% | Y284Y (TAT→TAC) | metX → | possible homoserine O‑acetyltransferase |
| RA | 110,651 | C→T | 15.9% | D170D (GAC→GAT) | USA300HOU_0109 → | staphylococcal tandem lipoprotein |
| RA | 110,660 | T→A | 21.2% | I173I (ATT→ATA) | USA300HOU_0109 → | staphylococcal tandem lipoprotein |
| RA | 111,512 | A→G | 27.4% | S194S (TCA→TCG) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 111,516 | C→A | 24.7% | Q196K (CAA→AAA) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 111,560 | T→C | 10.3% | R210R (CGT→CGC) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 367,644 | G→T | 100% | intergenic (‑96/‑20) | nanA ← / → nagC | N‑acetylneuraminate lyase/possible transcriptional regulator |
| RA | 479,553 | G→A | 100% | A194T (GCA→ACA) | USA300HOU_0458 → | hypothetical protein |
| RA | 492,511 | C→T | 6.4% | A313V (GCA→GTA) | sle1 → | possible LysM family autolysin |
| RA | 512,643 | A→G | 46.2% | intergenic (+711/‑150) | recR → / → rrs1 | recombination protein RecR/16S ribosomal RNA |
| RA | 638,614 | G→T | 100% | T14K (ACA→AAA) | thiD ← | phosphomethylpyrimidine kinase |
| RA | 707,879 | A→T | 100% | L11I (TTA→ATA) | mntB ← | ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 790,778 | G→A | 100% | intergenic (+277/‑197) | kipA → / → ltaS | possible allophanate hydrolase subunit 2/possible phosphatidylglycerol‑‑membrane‑oligosaccharide glycerophosphotransferase |
| RA | 923,858 | T→C | 6.6% | W53R (TGG→CGG) | lipA → | lipooyl synthase |
| RA | 1,232,465 | G→C | 100% | A124P (GCG→CCG) | prkC → | non‑specific serine/threonine protein kinase |
| RA | 1,274,207 | T→A | 7.3% | S204T (TCA→ACA) | codY → | CodY family transcriptional regulator |
| RA | 1,416,458 | A→T | 100% | I216N (ATT→AAT) | oppD ← | oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 1,440,007 | Δ1 bp | 100% | coding (34/201 nt) | cspA ← | cold shock protein CspA |
| RA | 1,474,639 | C→G | 100% | A9129P (GCA→CCA) | ebh ← | extracellular matrix binding protein |
| RA | 1,476,694 | T→C | 5.1% | N8444D (AAC→GAC) | ebh ← | extracellular matrix binding protein |
| RA | 1,481,355 | G→T | 100% | A6890E (GCA→GAA) | ebh ← | extracellular matrix binding protein |
| RA | 1,513,930 | A→T | 100% | L413F (TTA→TTT) | USA300HOU_1379 → | hypothetical membrane protein |
| RA | 1,646,189 | G→C | 100% | A155G (GCA→GGA) | pepP ← | M24B family Xaa‑Pro dipeptidase |
| RA | 1,744,454 | C→T | 100% | G73D (GGC→GAC) | apt ← | adenine phosphoribosyltransferase |
| RA | 1,797,772 | G→C | 100% | R7G (CGC→GGC) | phoR ← | sensor histidine kinase |
| RA | 1,822,730 | T→A | 5.5% | intergenic (+51/+195) | USA300HOU_1697 → / ← ackA | possible universal stress protein/acetate kinase |
| RA | 1,848,389 | T→C | 18.0% | G367G (GGA→GGG) | fhs ← | formate‑‑tetrahydrofolate ligase |
| RA | 1,987,676 | A→G | 5.5% | intergenic (+258/+38) | USA300HOU_1847 → / ← USA300HOU_1848 | hypothetical protein/hypothetical protein |
| RA | 2,004,413 | T→C | 6.0% | I65M (ATA→ATG) | perR ← | Fur family transcriptional regulator |
| RA | 2,010,363 | C→T | 100% | C146Y (TGT→TAT) | ygaD ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 2,143,110 | G→A | 77.2% | V163V (GTG→GTA) | USA300HOU_2026 → | hypothetical membrane protein |
| RA | 2,211,670 | C→A | 5.3% | intergenic (‑396/+150) | USA300HOU_2086 ← / ← yidC | hypothetical protein/hypothetical membrane protein |
| RA | 2,272,762 | C→T | 6.9% | intergenic (‑350/‑313) | glmS ← / → mtlF | glutamine‑‑fructose‑6‑phosphate transaminase (isomerizing)/PTS family fructose/mannitol (fru) porter component IIBC |
| RA | 2,279,705 | G→A | 100% | intergenic (+1373/+6659) | mtlD → / ← glmM | mannitol‑1‑phosphate 5‑dehydrogenase/phosphoglucosamine mutase |
| RA | 2,420,667 | G→T | 8.6% | intergenic (+98/‑264) | ssaA → / → gyaR | secretory antigen SsaA/(R)‑2‑hydroxyacid dehydrogenase |
| RA | 2,430,141 | C→A | 7.8% | E146* (GAA→TAA) | suhB ← | inositol‑phosphate phosphatase |
| RA | 2,499,424 | A→G | 5.4% | intergenic (‑1/‑182) | scrA ← / → USA300HOU_2363 | PTS family sucrose porter component IIBC/hypothetical protein |
| RA | 2,532,298 | A→T | 100% | T15T (ACA→ACT) | murN → | FemAB family peptidoglycan biosynthesis protein |
| RA | 2,821,394 | T→A | 8.5% | K122* (AAG→TAG) | ywrF ← | hypothetical protein |
| RA | 2,856,087 | T→A | 100% | P80P (CCT→CCA) | USA300HOU_2698 → | hypothetical protein |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | 512620 = | 71 (1.040) | 39 (0.830) +40 bp |
31/180 | NT | 44.3% | intergenic (+688/‑173) | recR/rrs1 | recombination protein RecR/16S ribosomal RNA |
| ? | CP000730 | 1998278 = | NA (NA) | intergenic (‑6/+5) | USA300HOU_t0050/rrf4 | tRNA‑Val/5S ribosomal RNA | |||||
| * | ? | CP000730 | 1822717 = | 62 (0.910) | 3 (0.050) | 3/238 | NT | 5.5% | intergenic (+38/+208) | USA300HOU_1697/ackA | possible universal stress protein/acetate kinase |
| ? | CP000730 | 1822745 = | 47 (0.750) | intergenic (+66/+180) | USA300HOU_1697/ackA | possible universal stress protein/acetate kinase | |||||