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 |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 39,672 | C→A | 100% | V488F (GTT→TTT) | mecA ← | penicillin binding protein 2 prime |
| RA | 76,969 | G→A | 100% | intergenic (+1027/‑107) | USA300HOU_0072 → / → USA300HOU_0075 | universal stress protein/lysophospholipase |
| RA | 110,660 | T→A | 17.3% | I173I (ATT→ATA) | USA300HOU_0109 → | staphylococcal tandem lipoprotein |
| RA | 111,512 | A→G | 37.4% | S194S (TCA→TCG) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 111,516 | C→A | 35.6% | Q196K (CAA→AAA) | USA300HOU_0110 → | possible staphylococcal tandem lipoprotein |
| RA | 195,286 | T→A | 100% | intergenic (‑97/‑82) | USA300HOU_0183 ← / → USA300HOU_0184 | hypothetical protein/hypothetical protein |
| RA | 396,540 | G→A | 100% | A208T (GCA→ACA) | USA300HOU_0364 → | possible lipoprotein |
| RA | 459,019 | G→A | 9.4% | G27E (GGG→GAG) | hsdS1 → | type I site‑specific deoxyribonuclease specificity subunit |
| RA | 512,643 | A→G | 41.3% | intergenic (+711/‑150) | recR → / → rrs1 | recombination protein RecR/16S ribosomal RNA |
| RA | 607,884 | G→A | 100% | R209* (CGA→TGA) | dck ← | deoxynucleoside kinase |
| RA | 629,681 | C→A | 100% | L84I (CTA→ATA) | hxlA → | possible 3‑hexulose‑6‑phosphate synthase |
| RA | 665,392 | T→G | 100% | L79* (TTA→TGA) | iolS → | possible acetytransferase |
| RA | 707,910 | A→G | 100% | intergenic (‑1/‑121) | mntB ← / → sirR | ABC superfamily ATP binding cassette transporter, ABC protein/possible metal‑dependent transcriptional regulator |
| RA | 745,728 | A→G | 16.8% | K9E (AAA→GAA) | yeeN → | hypothetical protein |
| RA | 804,673 | A→T | 100% | L135I (TTA→ATA) | dtpT ← | POT family proton (H+)‑dependent oligopeptide transporter |
| RA | 933,033 | T→C | 100% | intergenic (‑74/‑27) | nifU ← / → USA300HOU_0898 | possible NifU family protein/hypothetical protein |
| RA | 1,064,444 | Δ1 bp | 100% | coding (45/1218 nt) | brpA ← | LytR family transcriptional regulator |
| RA | 1,233,504 | T→A | 100% | V470D (GTT→GAT) | prkC → | non‑specific serine/threonine protein kinase |
| RA | 1,416,458 | A→T | 100% | I216N (ATT→AAT) | oppD ← | oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 1,430,220 | T→C | 10.5% | intergenic (+329/‑531) | ykpA → / → lysC2 | ABC superfamily ATP binding cassette transporter binding protein/aspartate kinase |
| RA | 1,440,085 | G→T | 100% | intergenic (‑45/‑891) | cspA ← / → xpaC | cold shock protein CspA/5‑bromo‑4‑chloroindolyl phosphate hydrolysis protein XpaC |
| RA | 1,513,930 | A→T | 100% | L413F (TTA→TTT) | USA300HOU_1379 → | hypothetical membrane protein |
| RA | 1,646,189 | G→C | 100% | A155G (GCA→GGA) | pepP ← | M24B family Xaa‑Pro dipeptidase |
| RA | 1,744,362 | G→A | 100% | H104Y (CAC→TAC) | apt ← | adenine phosphoribosyltransferase |
| MC JC | 1,747,374 | Δ3 bp | 100% | coding (2073‑2075/2280 nt) | secDF ← | RND superfamily resistance‑nodulation‑cell division protein:proton (H+) antiporter |
| RA | 1,761,889 | C→A | 100% | D388Y (GAT→TAT) | folC ← | tetrahydrofolate synthase |
| RA | 1,963,768 | C→G | 100% | V365L (GTA→CTA) | hemG ← | protoporphyrinogen oxidase |
| RA | 2,010,363 | C→T | 100% | C146Y (TGT→TAT) | ygaD ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 2,028,583 | G→T | 100% | A21D (GCC→GAC) | yvqF ← | hypothetical membrane protein |
| RA | 2,279,705 | G→A | 100% | intergenic (+1373/+6659) | mtlD → / ← glmM | mannitol‑1‑phosphate 5‑dehydrogenase/phosphoglucosamine mutase |
| RA | 2,289,257 | A→C | 66.7% | V78G (GTA→GGA) | ybbP ← | hypothetical membrane protein |
| RA | 2,352,815 | G→A | 100% | A92V (GCA→GTA) | rpsI ← | ribosomal protein S9 |
| RA | 2,454,626 | A→T | 100% | L48L (CTA→CTT) | USA300HOU_2315 → | hypothetical membrane protein |
| RA | 2,480,567 | C→T | 8.4% | R113H (CGC→CAC) | htrA ← | hemin ABC superfamily ATP binding cassette transporter, membrane protein |
| MC JC | 2,501,188 | Δ3,014 bp | 100% | USA300HOU_2364 | USA300HOU_2364 | |
| RA | 2,530,133 | T→A | 11.5% | intergenic (‑196/+99) | adcA ← / ← txe | ABC superfamily ATP binding cassette transporter, binding protein/hypothetical protein |
| RA | 2,532,298 | A→T | 100% | T15T (ACA→ACT) | murN → | FemAB family peptidoglycan biosynthesis protein |
| RA | 2,590,608 | G→T | 10.0% | L84L (CTG→CTT) | USA300HOU_2452 → | hypothetical protein |
| RA | 2,709,609 | C→A | 18.6% | E440* (GAG→TAG) | oatA ← | possible acetyltransferase |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | 512620 = | 49 (1.060) | 26 (0.820) +40 bp |
19/178 | NT | 43.6% | intergenic (+688/‑173) | recR/rrs1 | recombination protein RecR/16S ribosomal RNA |
| ? | CP000730 | 1998278 = | NA (NA) | intergenic (‑6/+5) | USA300HOU_t0050/rrf4 | tRNA‑Val/5S ribosomal RNA | |||||
| * | ? | CP000730 | 2660570 = | 43 (0.930) | 4 (0.100) | 4/234 | NT | 9.9% | intergenic (+12/+237) | ddh/USA300HOU_2514 | D‑lactate dehydrogenase/HAD superfamily hydrolase |
| ? | CP000730 | 2660603 = | 34 (0.810) | intergenic (+45/+204) | ddh/USA300HOU_2514 | D‑lactate dehydrogenase/HAD superfamily hydrolase | |||||