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 | ||
| * | USA300TCH1516_ALE | 512,643 | 0 | A | G | 51.1% | 11.5 / inf | 332 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 25.5% | 476.5 / 188.2 | 286 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 23.3% | 542.5 / 145.3 | 280 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 17 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 68659 = | 160 (0.940) | 8 (0.050) | 8/260 | 10.6 | 5.5% | coding (775/852 nt) | USA300TCH1516_00061 | hypothetical protein |
| ? | USA300TCH1516_ALE | = 68655 | 133 (0.890) | coding (771/852 nt) | USA300TCH1516_00061 | hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 2085296 = | 176 (1.040) | 9 (0.060) | 6/268 | 11.9 | 5.6% | coding (173/201 nt) | hlb_1 | Phospholipase C |
| ? | USA300TCH1516_ALE | = 2128343 | 144 (0.940) | coding (1/825 nt) | hlb_2 | Phospholipase C | |||||
| * | ? | USA300TCH1516_ALE | 895785 = | 122 (0.720) | 12 (0.080) | 5/262 | 12.4 | 8.6% | coding (806/822 nt) | metQ_2 | Methionine‑binding lipoprotein MetQ |
| ? | USA300TCH1516_ALE | = 909740 | 146 (0.970) | intergenic (‑663/‑371) | USA300HOU_RS04500/csbD_1 | hypothetical protein/Stress response protein CsbD | |||||
| * | ? | USA300TCH1516_ALE | 2306141 = | 203 (1.200) | 7 (0.050) | 4/262 | 13.1 | 3.6% | intergenic (+7/+125) | USA300HOU_RS11765/USA300HOU_RS11770 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | 2306185 = | 194 (1.290) | intergenic (+51/+81) | USA300HOU_RS11765/USA300HOU_RS11770 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 514456 | 162 (0.950) | 259 (1.570) | 5/288 | 13.2 | 61.5% | intergenic (+2524/‑4239) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| ? | USA300TCH1516_ALE | 514473 = | 167 (1.010) | intergenic (+2541/‑4222) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase | |||||
| * | ? | USA300TCH1516_ALE | 2543221 = | 209 (1.230) | 4 (0.030) | 4/270 | 13.3 | 2.1% | intergenic (+15/‑552) | hlgA/hlgC_2 | Gamma‑hemolysin component A/Gamma‑hemolysin component C |
| ? | USA300TCH1516_ALE | 2543266 = | 187 (1.210) | intergenic (+60/‑507) | hlgA/hlgC_2 | Gamma‑hemolysin component A/Gamma‑hemolysin component C | |||||
| * | ? | USA300TCH1516_ALE | = 614093 | 155 (0.910) | 11 (0.070) +CGATTCAGAT |
4/276 | 13.5 | 6.5% | coding (2405/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C |
| ? | USA300TCH1516_ALE | 622324 = | 185 (1.090) | coding (2887/3465 nt) | sdrE | Serine‑aspartate repeat‑containing protein E | |||||
| * | ? | USA300TCH1516_ALE | 418185 = | 170 (1.000) | 5 (0.030) | 4/280 | 13.6 | 2.8% | intergenic (+38/+48) | ychF/USA300HOU_RS01930 | Ribosome‑binding ATPase YchF/hypothetical protein |
| ? | USA300TCH1516_ALE | 418213 = | 186 (1.160) | intergenic (+66/+20) | ychF/USA300HOU_RS01930 | Ribosome‑binding ATPase YchF/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 2395755 | 179 (1.050) | 4 (0.020) | 4/284 | 13.7 | 2.3% | intergenic (‑159/+11) | moeB/cysA | Molybdopterin‑synthase adenylyltransferase/Sulfate/thiosulfate import ATP‑binding protein CysA |
| ? | USA300TCH1516_ALE | = 2395790 | 167 (1.030) | coding (582/606 nt) | cysA | Sulfate/thiosulfate import ATP‑binding protein CysA | |||||
| * | ? | USA300TCH1516_ALE | 2072822 = | 212 (1.250) | 5 (0.030) | 4/282 | 13.7 | 2.6% | coding (193/1113 nt) | USA300HOU_RS10455 | hypothetical protein |
| ? | USA300TCH1516_ALE | 2072839 = | 166 (1.030) | coding (210/1113 nt) | USA300HOU_RS10455 | hypothetical protein | |||||