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 | 39,246 | C→T | 50.4% | A630T (GCT→ACT) | mecA ← | penicillin binding protein 2 prime |
| RA | 39,378 | C→A | 50.2% | D586Y (GAT→TAT) | mecA ← | penicillin binding protein 2 prime |
| RA | 110,660 | T→A | 17.1% | I173I (ATT→ATA) | USA300HOU_0109 → | staphylococcal tandem lipoprotein |
| RA | 111,512 | A→G | 37.0% | S194S (TCA→TCG) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 111,516 | C→A | 33.4% | Q196K (CAA→AAA) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 129,029 | A→G | 8.7% | L199L (TTA→CTA) | spa ← | immunoglobulin G binding protein A |
| RA | 160,585 | A→G | 7.0% | M260V (ATG→GTG) | deoB1 → | phosphopentomutase |
| RA | 225,710 | C→G | 43.8% | T266R (ACA→AGA) | murQ → | possible sugar phosphate isomerase |
| 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 | 496,458 | C→A | 17.0% | S220I (AGC→ATC) | gltC ← | glutamate synthase operon transcriptional regulator |
| RA | 512,643 | A→G | 61.0% | 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 | 849,263 | C→A | 34.2% | A130E (GCA→GAA) | yvcJ → | ATP‑binding protein |
| RA | 852,632 | C→T | 18.9% | A76V (GCG→GTG) | clpP → | S14 family endopeptidase ClpP |
| RA | 880,093 | G→T | 63.1% | intergenic (+271/‑70) | USA300HOU_0822 → / → nuc | hypothetical protein/micrococcal nuclease |
| RA | 1,064,082 | G→T | 15.4% | A136E (GCA→GAA) | brpA ← | LytR family transcriptional regulator |
| RA | 1,103,408 | A→G | 10.8% | L310L (TTA→TTG) | pdhA → | pyruvate dehydrogenase (acetyl‑transferring) alpha subunit |
| RA | 1,232,465 | G→C | 100% | A124P (GCG→CCG) | prkC → | non‑specific serine/threonine protein kinase |
| RA | 1,233,332 | C→A | 39.5% | P413T (CCT→ACT) | prkC → | non‑specific serine/threonine protein kinase |
| 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 | 1,481,355 | 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 | 1,775,439 | C→T | 49.7% | G362D (GGT→GAT) | clpX ← | S14 family endopeptidase ClpX |
| RA | 1,797,772 | G→C | 100% | R7G (CGC→GGC) | phoR ← | sensor histidine kinase |
| RA | 1,944,670 | G→A | 12.8% | intergenic (‑251/‑713) | splA ← / → USA300HOU_1807 | S1B family serine protease SplA/hypothetical protein |
| RA | 1,989,071 | C→T | 10.5% | G17S (GGT→AGT) | cspR ← | TrmH family RNA methyltransferase |
| RA | 2,010,363 | C→T | 100% | C146Y (TGT→TAT) | ygaD ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 2,013,179 | A→T | 28.0% | Q19H (CAA→CAT) | yfhP → | possible metal‑dependent hydrolase |
| RA | 2,026,655 | C→T | 12.9% | E87K (GAA→AAA) | vraR ← | response regulator VraR |
| RA | 2,028,542 | G→C | 22.2% | L35V (CTC→GTC) | yvqF ← | hypothetical membrane protein |
| RA | 2,279,705 | G→A | 100% | intergenic (+1373/+6659) | mtlD → / ← glmM | mannitol‑1‑phosphate 5‑dehydrogenase/phosphoglucosamine mutase |
| RA | 2,532,298 | A→T | 100% | T15T (ACA→ACT) | murN → | FemAB family peptidoglycan biosynthesis protein |
| RA | 2,727,823 | C→T | 8.5% | intergenic (‑42/‑176) | USA300HOU_2582 ← / → pyrD | hypothetical protein/dihydroorotate oxidase |
| RA | 2,775,041 | A→G | 12.2% | D715D (GAT→GAC) | clfB ← | clumping factor B |
| RA | 2,803,971 | A→T | 15.4% | V718D (GTC→GAC) | secA2 ← | Sec family Type I general secretory pathway protein SecA |
| 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 = | 33 (0.980) | 28 (1.200) +40 bp |
25/180 | NT | 55.2% | 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 | |||||