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 | 47.9% | 23.3 / 226.3 | 171 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 25.4% | 218.7 / 71.4 | 127 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 25.0% | 220.8 / 70.6 | 121 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 44 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 2085296 = | 84 (0.830) | 28 (0.310) | 19/252 | 4.5 | 27.8% | coding (173/201 nt) | hlb_1 | Phospholipase C |
| ? | USA300TCH1516_ALE | = 2128343 | 70 (0.770) | coding (1/825 nt) | hlb_2 | Phospholipase C | |||||
| * | ? | USA300TCH1516_ALE | 2661788 = | 86 (0.850) | 4 (0.040) | 4/248 | 10.8 | 5.3% | intergenic (‑181/‑140) | ybiV/yydI | Sugar phosphatase YbiV/putative peptide export ATP‑binding protein YydI |
| ? | USA300TCH1516_ALE | 2661832 = | 68 (0.760) | intergenic (‑225/‑96) | ybiV/yydI | Sugar phosphatase YbiV/putative peptide export ATP‑binding protein YydI | |||||
| * | ? | USA300TCH1516_ALE | 52489 = | 80 (0.790) | 26 (0.290) | 4/250 | 10.9 | 27.9% | intergenic (+99/‑574) | USA300HOU_RS00215/USA300HOU_RS00220 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | = 52983 | 63 (0.700) | intergenic (+593/‑80) | USA300HOU_RS00215/USA300HOU_RS00220 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 127971 = | 124 (1.220) | 4 (0.040) | 4/264 | 11.3 | 3.3% | intergenic (+191/+138) | lctP_1/spa | L‑lactate permease/Immunoglobulin G‑binding protein A |
| ? | USA300TCH1516_ALE | 128009 = | 114 (1.190) | intergenic (+229/+100) | lctP_1/spa | L‑lactate permease/Immunoglobulin G‑binding protein A | |||||
| * | ? | USA300TCH1516_ALE | 613948 = | 117 (1.160) | 11 (0.110) | 4/276 | 11.7 | 8.1% | coding (2260/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C |
| ? | USA300TCH1516_ALE | = 614091 | 134 (1.340) | coding (2403/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C | |||||
| * | ? | USA300TCH1516_ALE | = 954375 | 127 (1.250) | 3 (0.030) | 3/258 | 11.9 | 2.4% | intergenic (+29/+474) | gluD/glpQ_1 | NAD‑specific glutamate dehydrogenase/Glycerophosphodiester phosphodiesterase |
| ? | USA300TCH1516_ALE | = 954395 | 123 (1.320) | intergenic (+49/+454) | gluD/glpQ_1 | NAD‑specific glutamate dehydrogenase/Glycerophosphodiester phosphodiesterase | |||||
| * | ? | USA300TCH1516_ALE | = 614102 | 136 (1.340) | 6 (0.060) | 3/258 | 11.9 | 4.6% | coding (2414/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C |
| ? | USA300TCH1516_ALE | 618423 = | 126 (1.350) | coding (3525/4146 nt) | sdrD | Serine‑aspartate repeat‑containing protein D | |||||
| * | ? | USA300TCH1516_ALE | = 225769 | 130 (1.280) | 3 (0.030) | 3/266 | 12.1 | 2.3% | coding (856/897 nt) | murQ | N‑acetylmuramic acid 6‑phosphate etherase |
| ? | USA300TCH1516_ALE | = 225773 | 128 (1.330) | coding (860/897 nt) | murQ | N‑acetylmuramic acid 6‑phosphate etherase | |||||
| * | ? | USA300TCH1516_ALE | 36148 = | NA (NA) | 5 (0.050) | 3/268 | 12.2 | 5.9% | coding (404/675 nt) | USA300HOU_RS00140 | hypothetical protein |
| ? | USA300TCH1516_ALE | = 76632 | 83 (0.820) | intergenic (+172/‑444) | USA300HOU_RS00140/USA300HOU_RS00350 | hypothetical protein/Monoacylglycerol lipase | |||||
| * | ? | USA300TCH1516_ALE | = 614093 | 140 (1.380) | 9 (0.090) | 3/276 | 12.4 | 6.1% | coding (2405/2844 nt) | sdrC | Serine‑aspartate repeat‑containing protein C |
| ? | USA300TCH1516_ALE | 618432 = | 138 (1.380) | coding (3534/4146 nt) | sdrD | Serine‑aspartate repeat‑containing protein D | |||||