mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 35,814 | Δ1 bp | 33.3% | intergenic (+45/+63) | rlmH → / ← tpn | hypothetical protein/IS431mec transposase |
| RA | 35,817 | A→T | 35.5% | intergenic (+48/+60) | rlmH → / ← tpn | hypothetical protein/IS431mec transposase |
| RA | 35,850 | C→T | 46.1% | intergenic (+81/+27) | rlmH → / ← tpn | hypothetical protein/IS431mec transposase |
| RA | 35,858 | T→A | 50.0% | intergenic (+89/+19) | rlmH → / ← tpn | hypothetical protein/IS431mec transposase |
| RA | 35,876 | C→T | 47.0% | intergenic (+107/+1) | rlmH → / ← tpn | hypothetical protein/IS431mec transposase |
| RA | 35,913 | C→G | 35.2% | S213S (TCG→TCC) | tpn ← | IS431mec transposase |
| RA | 35,940 | G→A | 34.5% | R204R (CGC→CGT) | tpn ← | IS431mec transposase |
| RA | 35,970 | T→C | 53.9% | E194E (GAA→GAG) | tpn ← | IS431mec transposase |
| RA | 35,997 | T→C | 31.0% | T185T (ACA→ACG) | tpn ← | IS431mec transposase |
| RA | 36,015 | C→T | 30.8% | R179R (AGG→AGA) | tpn ← | IS431mec transposase |
| RA | 36,087 | A→G | 58.1% | C155C (TGT→TGC) | tpn ← | IS431mec transposase |
| RA | 36,119 | C→T | 29.4% | V145I (GTA→ATA) | tpn ← | IS431mec transposase |
| RA | 36,124 | G→A | 55.4% | A143V (GCT→GTT) | tpn ← | IS431mec transposase |
| RA | 36,133 | A→G | 27.5% | V140A (GTA→GCA) | tpn ← | IS431mec transposase |
| RA | 36,161 | T→C | 28.5% | I131V (ATT→GTT) | tpn ← | IS431mec transposase |
| RA | 36,174 | T→C | 28.9% | K126K (AAA→AAG) | tpn ← | IS431mec transposase |
| RA | 36,269 | C→T | 58.8% | A95T (GCA→ACA) | tpn ← | IS431mec transposase |
| RA | 36,315 | G→A | 63.0% | Y79Y (TAC→TAT) | tpn ← | IS431mec transposase |
| RA | 36,378 | C→T | 89.2% | L58L (TTG→TTA) | tpn ← | IS431mec transposase |
| RA | 36,413 | C→T | 62.7% | V47I (GTC→ATC) | tpn ← | IS431mec transposase |
| RA | 36,444 | C→T | 52.2% | R36R (AGG→AGA) | tpn ← | IS431mec transposase |
| RA | 36,471 | A→G | 23.9% | S27S (AGT→AGC) | tpn ← | IS431mec transposase |
| RA | 76,265 | C→T | 21.4% | intergenic (+323/‑811) | USA300HOU_0072 → / → USA300HOU_0075 | universal stress protein/lysophospholipase |
| RA | 76,295 | T→C | 69.5% | intergenic (+353/‑781) | USA300HOU_0072 → / → USA300HOU_0075 | universal stress protein/lysophospholipase |
| RA | 76,322 | G→A | 65.3% | intergenic (+380/‑754) | USA300HOU_0072 → / → USA300HOU_0075 | universal stress protein/lysophospholipase |
| RA | 76,353 | G→A | 65.8% | intergenic (+411/‑723) | USA300HOU_0072 → / → USA300HOU_0075 | universal stress protein/lysophospholipase |
| RA | 111,516 | C→A | 36.8% | Q196K (CAA→AAA) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 222,846 | C→A | 21.0% | G148V (GGG→GTG) | glcB ← | PTS family glucose/glucoside (glc) porter component IIABC |
| RA | 1,306,605 | G→T | 33.3% | G223V (GGA→GTA) | fabG → | short chain dehydrogenase |
| RA | 1,354,081 | C→A | 25.0% | E242* (GAA→TAA) | USA300HOU_1269 ← | hypothetical protein |
| RA | 1,416,458 | A→T | 100% | I216N (ATT→AAT) | oppD ← | oligopeptide ABC superfamily ATP binding cassette transporter, ABC 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 | 1,929,812 | G→A | 26.6% | intergenic (‑895/‑273) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,843 | Δ1 bp | 32.0% | intergenic (‑926/‑242) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,848 | C→A | 30.8% | intergenic (‑931/‑237) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,861 | T→C | 32.0% | intergenic (‑944/‑224) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,862:1 | +T | 28.0% | intergenic (‑945/‑223) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,865 | A→C | 28.1% | intergenic (‑948/‑220) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,866 | G→T | 33.3% | intergenic (‑949/‑219) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,867 | G→T | 33.3% | intergenic (‑950/‑218) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,870 | A→C | 33.3% | intergenic (‑953/‑215) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,872 | G→A | 33.4% | intergenic (‑955/‑213) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,873 | C→A | 33.3% | intergenic (‑956/‑212) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,875 | T→C | 33.3% | intergenic (‑958/‑210) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,917 | C→T | 26.1% | intergenic (‑1000/‑168) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 1,929,918 | A→G | 26.1% | intergenic (‑1001/‑167) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| RA | 2,010,363 | C→T | 100% | C146Y (TGT→TAT) | ygaD ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 2,010,695 | T→A | 33.5% | L35L (CTA→CTT) | ygaD ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 2,139,469 | T→C | 30.8% | N31S (AAC→AGC) | xtmA ← | terminase small subunit |
| RA | 2,139,474 | T→A | 30.4% | G29G (GGA→GGT) | xtmA ← | terminase small subunit |
| RA | 2,139,498 | T→C | 30.8% | V21V (GTA→GTG) | xtmA ← | terminase small subunit |
| RA | 2,139,504 | C→A | 36.3% | L19L (CTG→CTT) | xtmA ← | terminase small subunit |
| RA | 2,139,513 | A→T | 36.4% | I16I (ATT→ATA) | xtmA ← | terminase small subunit |
| 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 |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP000730 | 463494 | 463512 | 19 | 2 [1] | [1] 2 | lpl11 | possible lipoprotein |
| * | * | ÷ | CP000730 | 983737 | 983785 | 49 | 2 [1] | [0] 2 | USA300HOU_0938/eap | hypothetical membrane protein/possible extracellular adherence protein Eap |
| * | * | ÷ | CP000730 | 983976 | 984019 | 44 | 2 [1] | [1] 2 | USA300HOU_0938/eap | hypothetical membrane protein/possible extracellular adherence protein Eap |
| * | * | ÷ | CP000730 | 1043361 | 1043390 | 30 | 2 [0] | [1] 3 | USA300HOU_0984/USA300HOU_0985 | glycosyltransferase/possible iron (Fe3+) ABC superfamily ATP binding cassette transporter, binding protein |
| * | * | ÷ | CP000730 | 1045148 | 1045210 | 63 | 2 [0] | [1] 3 | USA300HOU_0987/USA300HOU_0988 | hypothetical protein/hypothetical protein |
| * | * | ÷ | CP000730 | 1072623 | 1072628 | 6 | 3 [1] | [1] 3 | folD | bifunctional methylenetetrahydrofolate dehydrogenase (NADP(+))/methenyltetrahydrofolate cyclohydrolase |
| * | * | ÷ | CP000730 | 1166331 | 1166471 | 141 | 2 [1] | [0] 2 | [USA300HOU_1093] | [USA300HOU_1093] |
| * | * | ÷ | CP000730 | 1248291 | 1248329 | 39 | 2 [1] | [1] 2 | smc | SMC superfamily ATP‑binding chromosome segregation protein |
| * | * | ÷ | CP000730 | 1320703 | 1320717 | 15 | 2 [1] | [0] 2 | mutS1 | DNA mismatch repair protein MutS |
| * | * | ÷ | CP000730 | 1337231 | 1337284 | 54 | 2 [1] | [1] 2 | glnA | glutamate‑‑ammonia ligase |
| * | * | ÷ | CP000730 | 1345403 | 1345583 | 181 | 2 [1] | [1] 2 | [USA300HOU_1257] | [USA300HOU_1257] |
| * | * | ÷ | CP000730 | 1400136 | 1400194 | 59 | 2 [1] | [1] 2 | [umuC] | [umuC] |
| * | * | ÷ | CP000730 | 1515745 | 1515806 | 62 | 2 [1] | [1] 2 | [ypsC] | [ypsC] |
| * | * | ÷ | CP000730 | 1655866 | 1655923 | 58 | 2 [1] | [1] 2 | pulF | competence protein ComGB |
| * | * | ÷ | CP000730 | 1894340 | 1894397 | 58 | 2 [1] | [1] 2 | USA300HOU_1755/putA | lysophospholipase/proline dehydrogenase |
| * | * | ÷ | CP000730 | 2203636 | 2203696 | 61 | 3 [1] | [0] 2 | [murF] | [murF] |