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 | 9,710 | T→C | 6.8% | intergenic (+15/+72) | gyrA → / ← nnrD | DNA topoisomerase (ATP‑hydrolyzing) subunit A/possible carbohydrate kinase |
| RA | 9,716 | T→C | 7.3% | intergenic (+21/+66) | gyrA → / ← nnrD | DNA topoisomerase (ATP‑hydrolyzing) subunit A/possible carbohydrate kinase |
| RA | 111,512 | A→G | 40.2% | S194S (TCA→TCG) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 111,516 | C→A | 40.0% | Q196K (CAA→AAA) | 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 | 512,643 | A→G | 48.7% | 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 | 757,864 | T→C | 9.1% | T380T (ACT→ACC) | cydC → | 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 | 941,138 | G→A | 7.7% | Q298* (CAG→TAG) | USA300HOU_0905 ← | hypothetical protein |
| RA | 1,123,169 | T→C | 6.6% | R96R (CGT→CGC) | pycA → | pyruvate carboxylase |
| RA | 1,232,465 | G→C | 100% | A124P (GCG→CCG) | prkC → | non‑specific serine/threonine protein kinase |
| RA | 1,273,186 | G→C | 5.1% | P339P (CCG→CCC) | clpY → | T01 family HslU component of HsIUV peptidase |
| 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 | 1,797,772 | G→C | 100% | R7G (CGC→GGC) | phoR ← | sensor histidine kinase |
| 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 | 51.0% | V163V (GTG→GTA) | USA300HOU_2026 → | hypothetical membrane protein |
| RA | 2,251,804 | C→T | 7.7% | intergenic (‑21/‑290) | hmrA ← / → luxS | M20D subfamily peptidase/S‑ribosylhomocysteine lyase |
| RA | 2,279,705 | G→A | 100% | intergenic (+1373/+6659) | mtlD → / ← glmM | mannitol‑1‑phosphate 5‑dehydrogenase/phosphoglucosamine mutase |
| RA | 2,284,355 | T→C | 6.5% | intergenic (+6023/+2009) | 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 | 2,726,995 | G→C | 7.6% | H263D (CAT→GAT) | USA300HOU_2582 ← | 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 = | 56 (1.140) | 32 (0.950) +40 bp |
27/180 | NT | 45.3% | 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 | |||||