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 | annotation | gene | description |
| RA | 26,506 | C→G | R281G (CGC→GGC) | vicK → | sensor histidine kinase VicK |
| RA | 36,378 | C→T | L58L (TTG→TTA) | tpn ← | IS431mec transposase |
| RA | 603,961 | G→A | M465I (ATG→ATA) | araB → | ribulokinase |
| RA | 1,416,458 | A→T | I216N (ATT→AAT) | oppD ← | oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 1,513,930 | A→T | L413F (TTA→TTT) | USA300HOU_1379 → | hypothetical membrane protein |
| RA | 1,646,189 | G→C | A155G (GCA→GGA) | pepP ← | M24B family Xaa‑Pro dipeptidase |
| RA | 1,744,446 | G→A | P76S (CCT→TCT) | apt ← | adenine phosphoribosyltransferase |
| RA | 1,899,742 | A→G | N421N (AAT→AAC) | USA300HOU_1761 ← | hypothetical protein |
| RA | 2,010,363 | C→T | C146Y (TGT→TAT) | ygaD ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 2,030,815 | G→T | A90S (GCA→TCA) | USA300HOU_1885 → | hypothetical membrane protein |
| RA | 2,279,705 | G→A | intergenic (+1373/+6659) | mtlD → / ← glmM | mannitol‑1‑phosphate 5‑dehydrogenase/phosphoglucosamine mutase |
| RA | 2,532,298 | A→T | T15T (ACA→ACT) | murN → | FemAB family peptidoglycan biosynthesis protein |
| RA | 2,722,719 | C→T | G13D (GGT→GAT) | cobW3 ← | cobalamin (vitamin B12) biosynthesis protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP000730 | 58661 | 58848 | 188 | 5 [4] | [4] 8 | USA300HOU_0049/USA300HOU_0050 | hypothetical protein/hypothetical protein |
| * | * | ÷ | CP000730 | 58885 | 59035 | 151 | 6 [2] | [3] 5 | USA300HOU_0049/USA300HOU_0050 | hypothetical protein/hypothetical protein |
| * | * | ÷ | CP000730 | 346033 | 346149 | 117 | 5 [4] | [2] 6 | [USA300HOU_0310] | [USA300HOU_0310] |
| * | * | ÷ | CP000730 | 909129 | 909203 | 75 | 6 [4] | [4] 5 | ear/USA300HOU_0868 | Ear protein/hypothetical protein |
| * | * | ÷ | CP000730 | 987505 | 987553 | 49 | 6 [4] | [4] 5 | USA300HOU_0943 | hypothetical membrane protein |
| * | * | ÷ | CP000730 | 1339744 | 1339859 | 116 | 5 [4] | [3] 5 | USA300HOU_1242/USA300HOU_1243 | hypothetical protein/hypothetical protein |
| * | * | ÷ | CP000730 | 1392363 | 1392600 | 238 | 5 [4] | [3] 5 | alsT/glcT | AGCS family alanine or glycine:sodium (Na+) symporter/transcriptional antiterminator |
| * | * | ÷ | CP000730 | 1562013 | 1562100 | 88 | 6 [4] | [4] 5 | [lukS‑PV] | [lukS‑PV] |
| * | * | ÷ | CP000730 | 1697765 | 1697802 | 38 | 6 [4] | [4] 5 | [holA] | [holA] |
| * | * | ÷ | CP000730 | 1960901 | 1961020 | 120 | 6 [4] | [4] 5 | USA300HOU_1820/USA300HOU_1821 | hypothetical bacteriophage protein/hypothetical protein |
| * | * | ÷ | CP000730 | 2089630 | 2089712 | 83 | 6 [4] | [4] 5 | USA300HOU_1950/ami | hypothetical protein/N‑acetylmuramoyl‑L‑alanine amidase |
| * | * | ÷ | CP000730 | 2348644 | 2348810 | 167 | 5 [3] | [4] 5 | [USA300HOU_2204] | [USA300HOU_2204] |
| * | * | ÷ | CP000730 | 2825561 | 2825667 | 107 | 6 [4] | [2] 5 | capA/icaR | capsular polysaccharide biosynthesis protein CapA/Ica operon transcriptional regulator R |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | 512620 = | 32 (0.580) | 41 (1.070) +40 bp |
31/188 | 0.3 | 64.6% | 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 | |||||