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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 512,643 | 0 | A | G | 49.2% | 3.0 / 87.7 | 65 | intergenic (+711/‑150) | recR/rrs1 | recombination protein RecR/16S ribosomal RNA |
| * | CP000730 | 111,512 | 0 | A | G | 36.2% | 49.2 / 37.7 | 48 | S194S (TCA→TCG) | USA300HOU_0110 | possible staphylococcal tandem lipoprotein |
| * | CP000730 | 110,660 | 0 | T | A | 30.3% | 52.8 / 28.5 | 33 | I173I (ATT→ATA) | USA300HOU_0109 | staphylococcal tandem lipoprotein |
| * | CP000730 | 111,516 | 0 | C | A | 28.9% | 80.7 / 30.9 | 47 | Q196K (CAA→AAA) | USA300HOU_0110 | possible staphylococcal tandem lipoprotein |
| * | CP000730 | 110,651 | 0 | C | T | 22.9% | 67.5 / 16.0 | 35 | D170D (GAC→GAT) | USA300HOU_0109 | staphylococcal tandem lipoprotein |
| * | CP000730 | 1,443,724 | 0 | T | . | 20.0% | 53.7 / 10.0 | 20 | intergenic (‑297/+56) | USA300HOU_1341/brnQ2 | IS1272 transposase/LIVCS family branched chain amino acid:cation symporter |
| Marginal new junction evidence (lowest skew 10 of 29 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | = 41165 | 29 (0.850) | 6 (0.190) | 5/254 | 4.2 | 18.9% | intergenic (‑32/‑140) | mecA/mecR1 | penicillin binding protein 2 prime/methicillin resistance regulatory protein MecR1 |
| ? | CP000730 | = 41171 | 25 (0.800) | intergenic (‑38/‑134) | mecA/mecR1 | penicillin binding protein 2 prime/methicillin resistance regulatory protein MecR1 | |||||
| * | ? | CP000730 | 2179606 = | NA (NA) | 6 (0.180) | 5/264 | 4.4 | 100% | intergenic (‑50/+262) | rrl4/rrs4 | 23S ribosomal RNA/16S ribosomal RNA |
| ? | CP000730 | 2179610 = | 0 (0.000) | intergenic (‑54/+258) | rrl4/rrs4 | 23S ribosomal RNA/16S ribosomal RNA | |||||
| * | ? | CP000730 | 2001480 = | 3 (0.090) | 6 (0.180) | 5/264 | 4.4 | 67.8% | intergenic (‑89/+127) | rrl3/USA300HOU_t0051 | 23S ribosomal RNA/tRNA‑Ala |
| ? | CP000730 | 2179617 = | NA (NA) | intergenic (‑61/+251) | rrl4/rrs4 | 23S ribosomal RNA/16S ribosomal RNA | |||||
| * | ? | CP000730 | = 558914 | 1 (0.030) | 6 (0.180) | 5/264 | 4.4 | 86.3% | intergenic (+127/‑43) | USA300HOU_t0012/rrl2 | tRNA‑Ile/23S ribosomal RNA |
| ? | CP000730 | 2179617 = | NA (NA) | intergenic (‑61/+251) | rrl4/rrs4 | 23S ribosomal RNA/16S ribosomal RNA | |||||
| * | ? | CP000730 | = 514606 | 1 (0.030) | 6 (0.180) | 5/264 | 4.4 | 75.2% | intergenic (+274/‑100) | rrs1/rrl1 | 16S ribosomal RNA/23S ribosomal RNA |
| ? | CP000730 | 2001487 = | 3 (0.090) | intergenic (‑96/+120) | rrl3/USA300HOU_t0051 | 23S ribosomal RNA/tRNA‑Ala | |||||
| * | ? | CP000730 | = 514606 | 1 (0.030) | 6 (0.180) | 5/264 | 4.4 | 86.0% | intergenic (+274/‑100) | rrs1/rrl1 | 16S ribosomal RNA/23S ribosomal RNA |
| ? | CP000730 | = 558907 | 1 (0.030) | intergenic (+120/‑50) | USA300HOU_t0012/rrl2 | tRNA‑Ile/23S ribosomal RNA | |||||
| * | ? | CP000730 | = 514606 | 1 (0.030) | 6 (0.180) | 5/264 | 4.4 | 86.3% | intergenic (+274/‑100) | rrs1/rrl1 | 16S ribosomal RNA/23S ribosomal RNA |
| ? | CP000730 | = 514610 | NA (NA) | intergenic (+278/‑96) | rrs1/rrl1 | 16S ribosomal RNA/23S ribosomal RNA | |||||
| * | ? | CP000730 | 2857675 = | 28 (0.820) | 4 (0.130) | 4/258 | 4.8 | 10.8% | coding (90/96 nt) | USA300HOU_2700 | hypothetical protein |
| ? | CP000730 | 2857737 = | 40 (1.260) | coding (28/96 nt) | USA300HOU_2700 | hypothetical protein | |||||
| * | ? | CP000730 | 329202 = | 34 (0.990) | 4 (0.130) | 4/258 | 4.8 | 10.9% | intergenic (+70/+73) | USA300HOU_0295/USA300HOU_0296 | hypothetical membrane protein/hypothetical protein |
| ? | CP000730 | 329255 = | 34 (1.070) | intergenic (+123/+20) | USA300HOU_0295/USA300HOU_0296 | hypothetical membrane protein/hypothetical protein | |||||
| * | ? | CP000730 | 1383498 = | 38 (1.110) | 4 (0.120) | 4/266 | 4.9 | 9.6% | coding (2421/2706 nt) | acnA | aconitate hydratase |
| ? | CP000730 | 1383517 = | 39 (1.190) | coding (2440/2706 nt) | acnA | aconitate hydratase | |||||