mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 | 50.2% | 15.8 / inf | 247 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 30.1% | 256.2 / 124.9 | 166 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 29.4% | 314.5 / 116.1 | 160 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 119 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | = 1205323 | 100 (0.900) | 53 (0.660) +38 bp |
14/200 | 8.0 | 41.3% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | 2478252 = | 108 (0.970) | intergenic (+139/‑436) | USA300HOU_RS12760/USA300HOU_RS12765 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 1205323 | 100 (0.900) | 53 (0.660) +38 bp |
14/200 | 8.0 | 43.6% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | = 2072043 | 89 (0.800) | intergenic (+538/+35) | USA300HOU_RS10445/USA300HOU_RS10450 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 1205323 | 100 (0.900) | 53 (0.660) +38 bp |
14/200 | 8.0 | 42.2% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | = 1443739 | NA (NA) | intergenic (‑312/+41) | USA300TCH1516_01342/brnQ_3 | hypothetical protein/Branched‑chain amino acid transport system 2 carrier protein | |||||
| * | ? | USA300TCH1516_ALE | = 1205323 | 100 (0.900) | 53 (0.660) +38 bp |
14/200 | 8.0 | 43.4% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
| ? | USA300TCH1516_ALE | 1426517 = | 91 (0.820) | intergenic (‑248/+724) | pstS/cvfB | Phosphate‑binding protein PstS/Conserved virulence factor B | |||||
| * | ? | USA300TCH1516_ALE | 855629 = | 126 (1.140) | 3 (0.050) +57 bp |
3/162 | 12.5 | 4.3% | intergenic (+160/‑600) | zipA_1/cggR | Cell division protein ZipA/Central glycolytic genes regulator |
| ? | USA300TCH1516_ALE | 2830190 = | 104 (0.940) | intergenic (+18/+429) | icaC/lipA_2 | putative poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein/Lipase 1 | |||||
| * | ? | USA300TCH1516_ALE | 2830190 = | 104 (0.940) | 3 (0.040) +53 bp |
3/170 | 13.0 | 4.0% | intergenic (+18/+429) | icaC/lipA_2 | putative poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein/Lipase 1 |
| ? | USA300TCH1516_ALE | 2866774 = | 129 (1.160) | intergenic (‑173/+280) | USA300HOU_RS14695/noc_2 | hypothetical protein/Nucleoid occlusion protein | |||||
| * | ? | USA300TCH1516_ALE | 1695023 = | 85 (0.770) | 3 (0.040) +53 bp |
3/170 | 13.0 | 4.9% | intergenic (‑229/+301) | hemN_1/lepA | Oxygen‑independent coproporphyrinogen‑III oxidase‑like protein YqeR/Elongation factor 4 |
| ? | USA300TCH1516_ALE | 2830190 = | 104 (0.940) | intergenic (+18/+429) | icaC/lipA_2 | putative poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein/Lipase 1 | |||||
| * | ? | USA300TCH1516_ALE | = 954748 | 128 (1.150) | 3 (0.040) +52 bp |
3/172 | 13.1 | 4.0% | intergenic (+402/+101) | gluD/glpQ_1 | NAD‑specific glutamate dehydrogenase/Glycerophosphodiester phosphodiesterase |
| ? | USA300TCH1516_ALE | 2830190 = | 104 (0.940) | intergenic (+18/+429) | icaC/lipA_2 | putative poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein/Lipase 1 | |||||
| * | ? | USA300TCH1516_ALE | = 1380778 | 115 (1.040) | 3 (0.040) +51 bp |
3/174 | 13.2 | 4.2% | intergenic (+592/‑300) | opuD_1/acnA | Glycine betaine transporter OpuD/Aconitate hydratase A |
| ? | USA300TCH1516_ALE | 2830190 = | 104 (0.940) | intergenic (+18/+429) | icaC/lipA_2 | putative poly‑beta‑1,6‑N‑acetyl‑D‑glucosamine export protein/Lipase 1 | |||||
| * | ? | USA300TCH1516_ALE | = 1732970 | 125 (1.130) | 9 (0.090) | 8/252 | 13.5 | 7.3% | intergenic (+156/+81) | limB_2/USA300HOU_RS08645 | Limonene 1,2‑monooxygenase/hypothetical protein |
| ? | USA300TCH1516_ALE | = 1733003 | 114 (1.130) | intergenic (+189/+48) | limB_2/USA300HOU_RS08645 | Limonene 1,2‑monooxygenase/hypothetical protein | |||||