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 54 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 36,269 | 0 | C | T | 61.9% | 416.1 / inf | 894 | A95T (GCA→ACA) | tpn | IS431mec transposase |
| * | CP000730 | 36,087 | 0 | A | G | 58.4% | 403.0 / inf | 729 | C155C (TGT→TGC) | tpn | IS431mec transposase |
| * | CP000730 | 36,315 | 0 | G | A | 58.1% | 410.6 / inf | 993 | Y79Y (TAC→TAT) | tpn | IS431mec transposase |
| * | CP000730 | 76,295 | 0 | T | C | 58.1% | 257.0 / inf | 597 | intergenic (+353/‑781) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 76,322 | 0 | G | A | 57.1% | 183.3 / inf | 561 | intergenic (+380/‑754) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 36,124 | 0 | G | A | 56.7% | 156.8 / inf | 541 | A143V (GCT→GTT) | tpn | IS431mec transposase |
| * | CP000730 | 35,970 | 0 | T | C | 55.2% | 218.5 / inf | 503 | E194E (GAA→GAG) | tpn | IS431mec transposase |
| * | CP000730 | 1,929,861 | 0 | T | C | 53.1% | 43.1 / 183.0 | 144 | intergenic (‑944/‑224) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 76,353 | 0 | G | A | 53.1% | 57.9 / inf | 437 | intergenic (+411/‑723) | USA300HOU_0072/USA300HOU_0075 | universal stress protein/lysophospholipase |
| * | CP000730 | 1,929,873 | 0 | C | A | 52.8% | 26.9 / 261.4 | 145 | intergenic (‑956/‑212) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,875 | 0 | T | C | 52.8% | 31.3 / 192.0 | 145 | intergenic (‑958/‑210) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,867 | 0 | G | T | 52.7% | 25.5 / 261.1 | 146 | intergenic (‑950/‑218) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,872 | 0 | G | A | 52.4% | 6.9 / 207.9 | 145 | intergenic (‑955/‑213) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,848 | 0 | C | A | 52.3% | 19.6 / 262.2 | 149 | intergenic (‑931/‑237) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 36,413 | 0 | C | T | 52.0% | 39.6 / inf | 512 | V47I (GTC→ATC) | tpn | IS431mec transposase |
| * | CP000730 | 1,929,870 | 0 | A | C | 52.0% | 73.3 / 206.0 | 146 | intergenic (‑953/‑215) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,843 | 0 | A | . | 52.0% | 266.7 / inf | 151 | intergenic (‑926/‑242) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,842 | 0 | T | . | 51.7% | 273.5 / inf | 151 | intergenic (‑925/‑243) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 1,929,866 | 0 | G | T | 50.3% | 45.6 / 264.2 | 146 | intergenic (‑949/‑219) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| * | CP000730 | 512,643 | 0 | A | G | 50.0% | ‑3.5 / 204.6 | 142 | intergenic (+711/‑150) | recR/rrs1 | recombination protein RecR/16S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 20 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | = 2144160 | 1 (0.010) | 40 (0.540) +TGGTTTATCT |
25/250 | 3.6 | 97.7% | coding (484/1254 nt) | sdrH | Ser‑Asp rich fibrinogen/bone sialoprotein bindin protein SdrH |
| ? | CP000730 | 2144165 = | 1 (0.010) | coding (479/1254 nt) | sdrH | Ser‑Asp rich fibrinogen/bone sialoprotein bindin protein SdrH | |||||
| * | ? | CP000730 | 1647574 = | 95 (1.200) | 5 (0.070) | 5/258 | 11.4 | 5.3% | intergenic (+4/+60) | USA300HOU_1533/lipM | hypothetical membrane protein/lipoate‑‑protein ligase A |
| ? | CP000730 | 1647624 = | 87 (1.150) | intergenic (+54/+10) | USA300HOU_1533/lipM | hypothetical membrane protein/lipoate‑‑protein ligase A | |||||
| * | ? | CP000730 | 52495 = | 77 (0.970) | 108 (1.370) +T |
5/268 | 11.7 | 57.9% | intergenic (+105/‑568) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator |
| ? | CP000730 | = 52988 | 81 (1.020) | intergenic (+598/‑75) | USA300HOU_0043/USA300HOU_0044 | hypothetical membrane protein/possible transcriptional regulator | |||||
| * | ? | CP000730 | 298069 = | 79 (1.000) | 4 (0.050) | 4/250 | 11.8 | 5.2% | intergenic (+208/‑220) | tagB1/tagF | glycosyl/glycerophosphate transferase/CDP‑glycerol glycerophosphotransferase |
| ? | CP000730 | 298125 = | 74 (1.010) | intergenic (+264/‑164) | tagB1/tagF | glycosyl/glycerophosphate transferase/CDP‑glycerol glycerophosphotransferase | |||||
| * | ? | CP000730 | 613840 = | 99 (1.250) | 4 (0.050) | 4/258 | 12.1 | 4.2% | coding (2152/2844 nt) | sdrC | Ser‑Asp rich fibrinogen/bone sialoprotein‑binding protein SdrC |
| ? | CP000730 | = 618855 | 87 (1.150) | coding (3957/4146 nt) | sdrD | Ser‑Asp rich fibrinogen/bone sialoprotein‑binding protein SdrD | |||||
| * | ? | CP000730 | 920377 = | 73 (0.920) | 3 (0.040) | 3/242 | 12.3 | 4.4% | coding (52/135 nt) | USA300HOU_0880 | hypothetical protein |
| ? | CP000730 | 920443 = | 65 (0.910) | coding (6/99 nt) | USA300HOU_0881 | hypothetical protein | |||||
| * | ? | CP000730 | 2150647 = | 87 (1.100) | 3 (0.040) | 3/246 | 12.4 | 3.7% | intergenic (+131/+57) | USA300HOU_2036/frk | hypothetical protein/fructokinase |
| ? | CP000730 | 2150691 = | 76 (1.050) | intergenic (+175/+13) | USA300HOU_2036/frk | hypothetical protein/fructokinase | |||||
| * | ? | CP000730 | 2067929 = | 70 (0.880) | 3 (0.040) | 3/248 | 12.5 | 4.2% | intergenic (+42/+153) | ppaC/USA300HOU_1922 | inorganic diphosphatase/hypothetical protein |
| ? | CP000730 | 2067974 = | 71 (0.970) | intergenic (+87/+108) | ppaC/USA300HOU_1922 | inorganic diphosphatase/hypothetical protein | |||||
| * | ? | CP000730 | 2453730 = | 68 (0.860) | 3 (0.040) | 3/250 | 12.6 | 4.7% | coding (464/936 nt) | hutG | formimidoylglutamase |
| ? | CP000730 | 2453790 = | 58 (0.790) | coding (404/936 nt) | hutG | formimidoylglutamase | |||||
| * | ? | CP000730 | = 855791 | 82 (1.030) | 3 (0.040) | 3/250 | 12.6 | 4.1% | coding (14/147 nt) | USA300HOU_0800 | hypothetical protein |
| ? | CP000730 | = 1695118 | 66 (0.900) | coding (24/129 nt) | USA300HOU_1585 | hypothetical protein | |||||