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 |
| Marginal read alignment evidence (highest frequency 20 of 59 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 1,929,861 | 0 | T | C | 76.1% | 877.8 / 217.3 | 452 | intergenic (‑944/‑224) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,848 | 0 | C | A | 75.4% | 761.5 / 273.1 | 456 | intergenic (‑931/‑237) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,843 | 0 | A | . | 75.1% | 1001.7 / inf | 455 | intergenic (‑926/‑242) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,867 | 0 | G | T | 75.1% | 718.3 / 287.1 | 456 | intergenic (‑950/‑218) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,870 | 0 | A | C | 74.5% | 954.7 / 225.3 | 461 | intergenic (‑953/‑215) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,842 | 0 | T | . | 74.1% | 981.6 / inf | 457 | intergenic (‑925/‑243) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,918 | 0 | A | G | 73.8% | 816.6 / 258.6 | 470 | intergenic (‑1001/‑167) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,917 | 0 | C | T | 73.6% | 718.0 / 297.7 | 470 | intergenic (‑1000/‑168) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,872 | 0 | G | A | 73.4% | 693.5 / 300.3 | 467 | intergenic (‑955/‑213) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,875 | 0 | T | C | 73.4% | 844.5 / 260.3 | 468 | intergenic (‑958/‑210) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,866 | 0 | G | T | 73.4% | 635.8 / 283.9 | 456 | intergenic (‑949/‑219) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,873 | 0 | C | A | 73.3% | 716.1 / 312.4 | 467 | intergenic (‑956/‑212) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,930 | 0 | T | A | 71.1% | 630.3 / 293.9 | 394 | intergenic (‑1013/‑155) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,925 | 0 | T | A | 70.7% | 615.3 / 298.6 | 394 | intergenic (‑1008/‑160) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,928 | 0 | T | A | 70.4% | 584.3 / inf | 394 | intergenic (‑1011/‑157) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,812 | 0 | G | A | 67.1% | 315.4 / 250.8 | 309 | intergenic (‑895/‑273) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 35,876 | 0 | C | T | 66.7% | 147.0 / inf | 512 | intergenic (+107/+1) | rlmH/tpn | hypothetical protein/IS431mec transposase |
| * | CP000730 | 1,929,941 | 0 | A | T | 64.9% | 351.3 / inf | 339 | intergenic (‑1024/‑144) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 36,087 | 0 | A | G | 63.8% | 2371.6 / inf | 2596 | C155C (TGT→TGC) | tpn | IS431mec transposase |
| * | CP000730 | 36,124 | 0 | G | A | 63.1% | 1370.6 / inf | 1971 | A143V (GCT→GTT) | 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 | 52489 = | 85 (0.740) | 28 (0.270) | 6/264 | 8.0 | 23.7% | intergenic (+99/‑574) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator |
| ? | CP000730 | = 52983 | 104 (1.010) | intergenic (+593/‑80) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator | |||||
| * | ? | CP000730 | 52495 = | 82 (0.720) | 114 (1.000) +T |
7/292 | 8.1 | 54.3% | intergenic (+105/‑568) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator |
| ? | CP000730 | = 52988 | 111 (0.970) | intergenic (+598/‑75) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator | |||||
| * | ? | CP000730 | 68659 = | 97 (0.850) | 4 (0.040) | 4/258 | 9.0 | 4.6% | coding (775/852 nt) | USA300HOU_0065 | transposase |
| ? | CP000730 | = 68655 | 81 (0.810) | coding (771/852 nt) | USA300HOU_0065 | transposase | |||||
| * | ? | CP000730 | = 2640193 | 142 (1.240) | 3 (0.030) | 3/250 | 9.5 | 2.4% | intergenic (‑45/+109) | gntR/USA300HOU_2495 | gluconate operon transcriptional repressor/MerR family transcriptional regulator |
| ? | CP000730 | = 2640171 | 124 (1.280) | intergenic (‑23/+131) | gntR/USA300HOU_2495 | gluconate operon transcriptional repressor/MerR family transcriptional regulator | |||||
| * | ? | CP000730 | 2699163 = | 129 (1.130) | 46 (0.420) +TAGTGT |
3/282 | 10.2 | 26.0% | intergenic (+67/‑224) | copA/merP | P‑ATPase superfamily P‑type ATPase copper (Cu2+) transporter/MerTP family mercury (Hg2+) permease, binding protein MerP |
| ? | CP000730 | = 2699363 | 144 (1.260) | intergenic (+267/‑24) | copA/merP | P‑ATPase superfamily P‑type ATPase copper (Cu2+) transporter/MerTP family mercury (Hg2+) permease, binding protein MerP | |||||
| * | ? | CP000730 | = 806479 | 115 (1.000) | 3 (0.030) | 3/284 | 10.2 | 2.4% | coding (324/867 nt) | USA300HOU_0753 | DMT superfamily drug/metabolite transporter |
| ? | CP000730 | = 806506 | 132 (1.190) | coding (297/867 nt) | USA300HOU_0753 | DMT superfamily drug/metabolite transporter | |||||