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 | 49.5% | 8.5 / 305.9 | 208 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 32.2% | 198.6 / 128.4 | 149 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 32.2% | 266.7 / 133.3 | 149 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 50 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | = 2144160 | 1 (0.010) | 56 (0.540) +TGGTTTATCT |
34/250 | 4.6 | 98.4% | coding (484/1254 nt) | USA300HOU_RS10940 | hypothetical protein |
| ? | USA300TCH1516_ALE | 2144165 = | 1 (0.010) | coding (479/1254 nt) | USA300HOU_RS10940 | hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 2144110 = | 41 (0.360) | 44 (0.430) | 12/246 | 11.5 | 69.6% | coding (534/1254 nt) | USA300HOU_RS10940 | hypothetical protein |
| ? | USA300TCH1516_ALE | = 2144148 | 1 (0.010) | coding (496/1254 nt) | USA300HOU_RS10940 | hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 774819 = | 117 (1.040) | 5 (0.050) | 5/244 | 15.7 | 4.5% | intergenic (+110/‑198) | fruA/nagA | PTS system fructose‑specific EIIABC component/N‑acetylglucosamine‑6‑phosphate deacetylase |
| ? | USA300TCH1516_ALE | 774873 = | 107 (1.050) | intergenic (+164/‑144) | fruA/nagA | PTS system fructose‑specific EIIABC component/N‑acetylglucosamine‑6‑phosphate deacetylase | |||||
| * | ? | USA300TCH1516_ALE | = 127847 | 87 (0.770) | 5 (0.050) | 5/248 | 15.8 | 5.9% | intergenic (+67/+262) | lctP_1/spa | L‑lactate permease/Immunoglobulin G‑binding protein A |
| ? | USA300TCH1516_ALE | = 127871 | 81 (0.780) | intergenic (+91/+238) | lctP_1/spa | L‑lactate permease/Immunoglobulin G‑binding protein A | |||||
| * | ? | USA300TCH1516_ALE | 298069 = | 104 (0.920) | 5 (0.050) | 5/250 | 15.9 | 4.8% | intergenic (+208/‑220) | tarK/tarF_1 | Teichoic acid ribitol‑phosphate polymerase TarK/Teichoic acid glycerol‑phosphate transferase |
| ? | USA300TCH1516_ALE | 298125 = | 101 (0.970) | intergenic (+264/‑164) | tarK/tarF_1 | Teichoic acid ribitol‑phosphate polymerase TarK/Teichoic acid glycerol‑phosphate transferase | |||||
| * | ? | USA300TCH1516_ALE | 2679992 = | 108 (0.960) | 4 (0.040) | 4/240 | 16.3 | 3.9% | intergenic (+44/+716) | ssaA2_4/USA300HOU_RS13810 | Staphylococcal secretory antigen ssaA2/hypothetical protein |
| ? | USA300TCH1516_ALE | 2681425 = | 99 (0.990) | intergenic (‑460/+119) | USA300HOU_RS13810/mvaA | hypothetical protein/3‑hydroxy‑3‑methylglutaryl‑coenzyme A reductase | |||||
| * | ? | USA300TCH1516_ALE | 2679952 = | 109 (0.970) | 4 (0.040) | 4/240 | 16.3 | 3.9% | intergenic (+4/+756) | ssaA2_4/USA300HOU_RS13810 | Staphylococcal secretory antigen ssaA2/hypothetical protein |
| ? | USA300TCH1516_ALE | 2680007 = | 99 (0.990) | intergenic (+59/+701) | ssaA2_4/USA300HOU_RS13810 | Staphylococcal secretory antigen ssaA2/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 1821730 | 107 (0.950) | 5 (0.050) | 5/258 | 16.3 | 4.5% | coding (309/1119 nt) | ald2 | Alanine dehydrogenase 2 |
| ? | USA300TCH1516_ALE | = 1821772 | 108 (1.000) | coding (267/1119 nt) | ald2 | Alanine dehydrogenase 2 | |||||
| * | ? | USA300TCH1516_ALE | 1647574 = | 142 (1.260) | 5 (0.050) | 5/258 | 16.3 | 3.6% | intergenic (+4/+60) | USA300HOU_RS08180/lipM | hypothetical protein/Octanoyltransferase LipM |
| ? | USA300TCH1516_ALE | 1647624 = | 132 (1.230) | intergenic (+54/+10) | USA300HOU_RS08180/lipM | hypothetical protein/Octanoyltransferase LipM | |||||
| * | ? | USA300TCH1516_ALE | 2256396 = | 120 (1.070) | 5 (0.050) | 4/242 | 16.4 | 4.6% | intergenic (+49/+72) | deoD1/dps | Purine nucleoside phosphorylase DeoD‑type 1/General stress protein 20U |
| ? | USA300TCH1516_ALE | 2256443 = | 100 (0.990) | intergenic (+96/+25) | deoD1/dps | Purine nucleoside phosphorylase DeoD‑type 1/General stress protein 20U | |||||