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 |
| Marginal read alignment evidence (highest frequency 20 of 55 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 2,455,692 | 0 | G | . | 78.8% | 167.7 / 58.3 | 66 | coding (1210/1260 nt) | USA300HOU_2315 | hypothetical membrane protein |
| * | CP000730 | 2,455,698 | 0 | C | A | 78.8% | 160.6 / 47.2 | 66 | coding (1216/1260 nt) | USA300HOU_2315 | hypothetical membrane protein |
| * | CP000730 | 1,929,867 | 0 | G | T | 68.8% | 219.3 / 145.7 | 193 | intergenic (‑950/‑218) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,870 | 0 | A | C | 68.8% | 275.6 / 132.1 | 193 | intergenic (‑953/‑215) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,875 | 0 | T | C | 68.5% | 254.4 / 137.1 | 190 | intergenic (‑958/‑210) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,872 | 0 | G | A | 68.2% | 211.8 / 151.8 | 194 | intergenic (‑955/‑213) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,873 | 0 | C | A | 67.5% | 198.6 / 166.7 | 194 | intergenic (‑956/‑212) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,861 | 0 | T | C | 67.2% | 253.1 / 130.6 | 194 | intergenic (‑944/‑224) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,848 | 0 | C | A | 66.3% | 216.5 / 149.4 | 200 | intergenic (‑931/‑237) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,843 | 0 | A | . | 65.3% | 248.4 / 314.8 | 201 | intergenic (‑926/‑242) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,842 | 0 | T | . | 65.0% | 234.3 / inf | 201 | intergenic (‑925/‑243) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,866 | 0 | G | T | 64.0% | 143.9 / 153.1 | 193 | intergenic (‑949/‑219) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 35,970 | 0 | T | C | 62.4% | 458.3 / inf | 583 | E194E (GAA→GAG) | tpn | IS431mec transposase |
| * | CP000730 | 36,087 | 0 | A | G | 62.2% | 689.6 / inf | 876 | C155C (TGT→TGC) | tpn | IS431mec transposase |
| * | CP000730 | 36,269 | 0 | C | T | 62.1% | 298.8 / inf | 729 | A95T (GCA→ACA) | tpn | IS431mec transposase |
| * | CP000730 | 36,315 | 0 | G | A | 61.9% | 388.2 / inf | 788 | Y79Y (TAC→TAT) | tpn | IS431mec transposase |
| * | CP000730 | 36,124 | 0 | G | A | 60.6% | 287.4 / inf | 611 | A143V (GCT→GTT) | tpn | IS431mec transposase |
| * | CP000730 | 76,295 | 0 | T | C | 59.5% | 294.2 / inf | 659 | intergenic (+353/‑781) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 76,322 | 0 | G | A | 59.4% | 212.6 / inf | 608 | intergenic (+380/‑754) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 36,413 | 0 | C | T | 59.1% | 174.0 / inf | 482 | V47I (GTC→ATC) | tpn | IS431mec transposase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | 52495 = | 72 (1.240) | 163 (2.830) +T |
9/266 | 3.7 | 67.8% | intergenic (+105/‑568) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator |
| ? | CP000730 | = 52988 | 84 (1.450) | intergenic (+598/‑75) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator | |||||
| * | ? | CP000730 | 52489 = | 74 (1.280) | 36 (0.700) | 6/238 | 4.2 | 33.1% | intergenic (+99/‑574) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator |
| ? | CP000730 | = 52983 | 80 (1.550) | intergenic (+593/‑80) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator | |||||
| * | ? | CP000730 | 37094 = | 78 (1.340) | 4 (0.070) | 4/248 | 5.2 | 5.2% | coding (21/231 nt) | USA300HOU_0028 | hypothetical protein |
| ? | CP000730 | 37188 = | 73 (1.360) | coding (115/231 nt) | USA300HOU_0028 | hypothetical protein | |||||
| * | ? | CP000730 | = 614093 | 133 (2.290) | 7 (0.120) | 3/264 | 6.0 | 5.2% | coding (2405/2844 nt) | sdrC | Ser‑Asp rich fibrinogen/bone sialoprotein‑binding protein SdrC |
| ? | CP000730 | 614118 = | 122 (2.130) | coding (2430/2844 nt) | sdrC | Ser‑Asp rich fibrinogen/bone sialoprotein‑binding protein SdrC | |||||
| * | ? | CP000730 | = 456294 | 45 (0.780) | 3 (0.050) | 3/262 | 6.0 | 7.0% | intergenic (+216/‑150) | set24/set25 | staphylococcal exotoxin/staphylococcal exotoxin |
| ? | CP000730 | = 456337 | 36 (0.630) | intergenic (+259/‑107) | set24/set25 | staphylococcal exotoxin/staphylococcal exotoxin | |||||