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 (highest frequency 20 of 56 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 36,087 | 0 | A | G | 60.5% | 608.8 / inf | 917 | C155C (TGT→TGC) | tpn | IS431mec transposase |
| * | CP000730 | 36,124 | 0 | G | A | 60.2% | 329.9 / inf | 714 | A143V (GCT→GTT) | tpn | IS431mec transposase |
| * | CP000730 | 76,295 | 0 | T | C | 58.5% | 461.4 / inf | 814 | intergenic (+353/‑781) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 76,322 | 0 | G | A | 58.4% | 377.4 / inf | 770 | intergenic (+380/‑754) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 36,269 | 0 | C | T | 57.2% | 204.3 / inf | 1120 | A95T (GCA→ACA) | tpn | IS431mec transposase |
| * | CP000730 | 35,970 | 0 | T | C | 57.1% | 342.7 / inf | 600 | E194E (GAA→GAG) | tpn | IS431mec transposase |
| * | CP000730 | 76,353 | 0 | G | A | 56.8% | 274.8 / inf | 632 | intergenic (+411/‑723) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 36,315 | 0 | G | A | 56.7% | 386.2 / inf | 1192 | Y79Y (TAC→TAT) | tpn | IS431mec transposase |
| * | CP000730 | 36,413 | 0 | C | T | 54.6% | 121.9 / inf | 657 | V47I (GTC→ATC) | tpn | IS431mec transposase |
| * | CP000730 | 1,929,861 | 0 | T | C | 53.4% | 61.7 / 246.9 | 191 | intergenic (‑944/‑224) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,875 | 0 | T | C | 53.2% | 56.1 / 253.1 | 190 | intergenic (‑958/‑210) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,870 | 0 | A | C | 52.9% | 124.1 / 257.8 | 190 | intergenic (‑953/‑215) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,872 | 0 | G | A | 52.9% | 15.4 / 274.5 | 191 | intergenic (‑955/‑213) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,873 | 0 | C | A | 52.9% | 21.8 / inf | 191 | intergenic (‑956/‑212) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,843 | 0 | A | . | 52.3% | inf / inf | 196 | intergenic (‑926/‑242) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,867 | 0 | G | T | 52.3% | 37.2 / inf | 193 | intergenic (‑950/‑218) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,866 | 0 | G | T | 51.6% | 53.1 / inf | 193 | intergenic (‑949/‑219) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,842 | 0 | T | . | 51.5% | inf / inf | 197 | intergenic (‑925/‑243) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 512,643 | 0 | A | G | 51.2% | 6.2 / 240.5 | 172 | intergenic (+711/‑150) | recR/rrs1 | recombination protein RecR/16S ribosomal RNA |
| * | CP000730 | 1,929,848 | 0 | C | A | 50.5% | 53.0 / inf | 200 | intergenic (‑931/‑237) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 36 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | = 1205323 | 75 (0.960) | 36 (0.630) +38 bp |
12/200 | 5.5 | 40.5% | intergenic (+459/‑365) | yfiE/lspA | possible lactoylglutathione lyase/A8 family signal peptidase II |
| ? | CP000730 | 2478252 = | 71 (0.900) | intergenic (+139/+932) | USA300HOU_2340/htrB | hypothetical membrane protein/hemin ABC superfamily ATP binding cassette transporter, ABC protein | |||||
| * | ? | CP000730 | = 1205323 | 75 (0.960) | 36 (0.630) +38 bp |
12/200 | 5.5 | 40.8% | intergenic (+459/‑365) | yfiE/lspA | possible lactoylglutathione lyase/A8 family signal peptidase II |
| ? | CP000730 | = 2072043 | 69 (0.880) | intergenic (+538/+35) | ykgB/USA300HOU_1927 | hypothetical protein/hypothetical protein | |||||
| * | ? | CP000730 | = 1205323 | 75 (0.960) | 36 (0.630) +38 bp |
12/200 | 5.5 | 39.9% | intergenic (+459/‑365) | yfiE/lspA | possible lactoylglutathione lyase/A8 family signal peptidase II |
| ? | CP000730 | = 1443739 | NA (NA) | intergenic (‑312/+41) | USA300HOU_1341/brnQ2 | IS1272 transposase/LIVCS family branched chain amino acid:cation symporter | |||||
| * | ? | CP000730 | = 1205323 | 75 (0.960) | 36 (0.630) +38 bp |
12/200 | 5.5 | 41.3% | intergenic (+459/‑365) | yfiE/lspA | possible lactoylglutathione lyase/A8 family signal peptidase II |
| ? | CP000730 | 1426517 = | 66 (0.840) | intergenic (‑248/+724) | pstS/yitL | phosphate ABC superfamily ATP binding cassette transporter, binding protein/hypothetical protein | |||||
| * | ? | CP000730 | 855629 = | 100 (1.270) | 3 (0.070) +57 bp |
3/162 | 8.8 | 5.5% | intergenic (+160/+29) | USA300HOU_0799/USA300HOU_0800 | hypothetical protein/hypothetical protein |
| ? | CP000730 | 2830190 = | 76 (0.970) | intergenic (+18/+173) | icaC/USA300HOU_2670 | intercellular adhesion protein C/hypothetical protein | |||||
| * | ? | CP000730 | 2830190 = | 76 (0.970) | 3 (0.060) +53 bp |
3/170 | 9.2 | 5.2% | intergenic (+18/+173) | icaC/USA300HOU_2670 | intercellular adhesion protein C/hypothetical protein |
| ? | CP000730 | 2866774 = | 101 (1.290) | intergenic (‑173/+280) | USA300HOU_2711/noc | hypothetical membrane protein/possible transcriptional regulator | |||||
| * | ? | CP000730 | 1695023 = | 72 (0.920) | 3 (0.060) +53 bp |
3/170 | 9.2 | 6.2% | coding (119/129 nt) | USA300HOU_1585 | hypothetical protein |
| ? | CP000730 | 2830190 = | 76 (0.970) | intergenic (+18/+173) | icaC/USA300HOU_2670 | intercellular adhesion protein C/hypothetical protein | |||||
| * | ? | CP000730 | = 1380778 | 87 (1.110) | 3 (0.060) +51 bp |
3/174 | 9.3 | 5.5% | intergenic (+2875/‑300) | sbcC/acnA | exodeoxyribonuclease SbcC/aconitate hydratase |
| ? | CP000730 | 2830190 = | 76 (0.970) | intergenic (+18/+173) | icaC/USA300HOU_2670 | intercellular adhesion protein C/hypothetical protein | |||||
| * | ? | CP000730 | = 954748 | 96 (1.220) | 3 (0.060) +52 bp |
3/172 | 9.3 | 5.3% | intergenic (+402/+101) | gudB/glpQ2 | glutamate dehydrogenase/glycerophosphodiester phosphodiesterase |
| ? | CP000730 | 2830190 = | 76 (0.970) | intergenic (+18/+173) | icaC/USA300HOU_2670 | intercellular adhesion protein C/hypothetical protein | |||||
| * | ? | CP000730 | = 1682523 | 88 (1.120) | 7 (0.100) | 7/256 | 9.8 | 7.8% | intergenic (‑268/+36) | phoH/USA300HOU_1573 | phosphate starvation‑inducible protein PhoH/hypothetical protein |
| ? | CP000730 | = 1682539 | 85 (1.170) | intergenic (‑284/+20) | phoH/USA300HOU_1573 | phosphate starvation‑inducible protein PhoH/hypothetical protein | |||||