mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.32.1 revision 5f2cb669173e
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 39,378 | C→A | 100% | D586Y (GAT→TAT) | mecA ← | penicillin binding protein 2 prime |
| RA | 110,660 | T→A | 11.8% | I173I (ATT→ATA) | USA300HOU_0109 → | staphylococcal tandem lipoprotein |
| RA | 111,512 | A→G | 19.0% | S194S (TCA→TCG) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 111,516 | C→A | 21.0% | Q196K (CAA→AAA) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 162,467 | A→G | 12.1% | L63S (TTA→TCA) | USA300HOU_0153 ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 478,502 | C→A | 100% | D342E (GAC→GAA) | USA300HOU_0457 → | NADH dehydrogenase (ubiquinone) |
| RA | 512,643 | A→G | 53.5% | intergenic (+711/‑150) | recR → / → rrs1 | recombination protein RecR/16S ribosomal RNA |
| RA | 584,121 | G→T | 100% | intergenic (+205/‑67) | rplA → / → rplJ | ribosomal protein L1/ribosomal protein L10 |
| RA | 612,076 | A→G | 12.8% | T130A (ACA→GCA) | sdrC → | Ser‑Asp rich fibrinogen/bone sialoprotein‑binding protein SdrC |
| RA | 707,909 | A→T | 100% | M1M (TTG→ATG) † | USA300HOU_0653 ← | ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 938,546 | G→T | 17.5% | intergenic (+1453/‑564) | USA300HOU_0902 → / → USA300HOU_0903 | NADH dehydrogenase/NhaC family sodium:proton (Na+:H+) antiporter |
| RA | 973,213 | C→A | 100% | E175* (GAG→TAG) | USA300HOU_0930 ← | possible HAD superfamily hydrolase |
| RA | 1,002,200 | T→G | 100% | M173R (ATG→AGG) | mecA2 → | competence negative regulator MecA |
| RA | 1,105,994 | T→C | 100% | T12T (ACT→ACC) | pdhD → | dihydrolipoyl dehydrogenase |
| RA | 1,108,996 | T→C | 19.9% | L165L (TTA→CTA) | potA → | spermidine/putrescine ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 1,162,505 | A→G | 16.6% | I95V (ATT→GTT) | murI → | glutamate racemase |
| RA | 1,196,508 | C→A | 100% | intergenic (+2563/‑1229) | ftsQ → / → USA300HOU_1125 | cell division protein FtsQ/hypothetical protein |
| RA | 1,232,052 | G→T | 100% | D233Y (GAT→TAT) | USA300HOU_1156 → | possible PP2C protein phosphatase |
| RA | 1,398,333 | G→A | 100% | Y101Y (TAC→TAT) | msrA1 ← | peptide‑methionine‑(S)‑S‑oxide reductase |
| RA | 1,416,458 | A→T | 100% | I216N (ATT→AAT) | USA300HOU_1314 ← | oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 1,471,910 | C→T | 100% | E10038E (GAG→GAA) | ebh ← | extracellular matrix binding protein |
| RA | 1,486,381 | G→T | 100% | Q5215K (CAA→AAA) | ebh ← | extracellular matrix binding protein |
| RA | 1,513,930 | A→T | 100% | L413F (TTA→TTT) | USA300HOU_1379 → | hypothetical membrane protein |
| RA | 1,539,250 | C→G | 100% | intergenic (‑349/+37) | aroC ← / ← USA300HOU_1405 | chorismate synthase/hypothetical protein |
| RA | 1,569,145 | T→C | 16.0% | M447V (ATG→GTG) | USA300HOU_1439 ← | hypothetical bacteriophage protein |
| RA | 1,646,189 | G→C | 100% | A155G (GCA→GGA) | USA300HOU_1531 ← | M24B family Xaa‑Pro dipeptidase |
| RA | 1,672,590 | G→T | 100% | L135I (CTT→ATT) | rpoD ← | DNA‑directed RNA polymerase sigma subunit RpoD |
| RA | 1,744,473 | C→T | 100% | A67T (GCT→ACT) | apt ← | adenine phosphoribosyltransferase |
| RA | 2,010,363 | C→T | 100% | C146Y (TGT→TAT) | USA300HOU_1861 ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 2,279,705 | G→A | 100% | intergenic (+1373/+6659) | mtlD → / ← glmM | mannitol‑1‑phosphate 5‑dehydrogenase/phosphoglucosamine mutase |
| RA | 2,289,324 | G→T | 100% | Q56K (CAG→AAG) | USA300HOU_2153 ← | hypothetical membrane protein |
| RA | 2,337,959 | C→T | 100% | intergenic (‑125/‑119) | USA300HOU_2195 ← / → USA300HOU_2196 | possible MerR family transcriptional regulator/hypothetical protein |
| RA | 2,455,692 | Δ1 bp | 100% | coding (1210/1260 nt) | USA300HOU_2315 → | hypothetical membrane protein |
| RA | 2,455,698 | 2 bp→AT | 100% | coding (1216‑1217/1260 nt) | USA300HOU_2315 → | hypothetical membrane protein |
| RA | 2,532,298 | A→T | 100% | T15T (ACA→ACT) | USA300HOU_2392 → | FemAB family peptidoglycan biosynthesis protein |
| RA | 2,679,263 | A→T | 26.0% | intergenic (+135/‑254) | USA300HOU_2535 → / → USA300HOU_2536 | hypothetical protein/possible secretory antigen |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | 512620 = | 25 (1.090) | 19 (1.200) +40 bp |
18/180 | NT | 52.4% | 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 | 782414 = | 20 (0.870) | 4 (0.190) | 4/240 | NT | 18.4% | intergenic (‑209/+133) | USA300HOU_0730/USA300HOU_0731 | hypothetical membrane protein/hypothetical lipoprotein |
| ? | CP000730 | 782453 = | 17 (0.800) | intergenic (‑248/+94) | USA300HOU_0730/USA300HOU_0731 | hypothetical membrane protein/hypothetical lipoprotein | |||||