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 | 39,378 | C→A | D586Y (GAT→TAT) | mecA ← | penicillin binding protein 2 prime |
| RA | 367,644 | G→T | intergenic (‑96/‑20) | nanA ← / → nagC | N‑acetylneuraminate lyase/possible transcriptional regulator |
| RA | 479,553 | G→A | A194T (GCA→ACA) | USA300HOU_0458 → | hypothetical protein |
| RA | 638,614 | G→T | T14K (ACA→AAA) | thiD ← | phosphomethylpyrimidine kinase |
| RA | 707,879 | A→T | L11I (TTA→ATA) | mntB ← | ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 790,778 | G→A | intergenic (+277/‑197) | kipA → / → ltaS | possible allophanate hydrolase subunit 2/possible phosphatidylglycerol‑‑membrane‑oligosaccharide glycerophosphotransferase |
| MC JC | 819,056 | Δ596 bp | [ytxJ] | [ytxJ] | |
| RA | 1,064,126 | G→C | Y121* (TAC→TAG) | brpA ← | LytR family transcriptional regulator |
| RA | 1,232,465 | G→C | A124P (GCG→CCG) | prkC → | non‑specific serine/threonine protein kinase |
| RA | 1,238,307 | C→T | Q141* (CAA→TAA) | yloV → | glycerone kinase |
| RA | 1,274,212 | A→T | K205N (AAA→AAT) | codY → | CodY family transcriptional regulator |
| RA | 1,318,237 | T→A | F124Y (TTT→TAT) | miaB → | 2‑methylthioadenine synthetase |
| RA | 1,416,458 | A→T | I216N (ATT→AAT) | oppD ← | oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein |
| RA | 1,440,007 | Δ1 bp | coding (34/201 nt) | cspA ← | cold shock protein CspA |
| RA | 1,474,639 | C→G | A9129P (GCA→CCA) | ebh ← | extracellular matrix binding protein |
| RA | 1,481,355 | G→T | A6890E (GCA→GAA) | ebh ← | extracellular matrix binding protein |
| RA | 1,513,930 | A→T | L413F (TTA→TTT) | USA300HOU_1379 → | hypothetical membrane protein |
| RA | 1,607,132 | C→T | intergenic (+1247/+815) | USA300HOU_1490 → / ← USA300HOU_1492 | integrase/possible lipoprotein |
| RA | 1,646,189 | G→C | A155G (GCA→GGA) | pepP ← | M24B family Xaa‑Pro dipeptidase |
| RA | 1,744,454 | C→T | G73D (GGC→GAC) | apt ← | adenine phosphoribosyltransferase |
| RA | 1,770,911 | T→A | S73C (AGT→TGT) | hemD ← | uroporphyrinogen‑III synthase |
| RA | 1,797,772 | G→C | R7G (CGC→GGC) | phoR ← | sensor histidine kinase |
| RA | 1,883,654 | C→T | G522D (GGT→GAT) | fmtB1 ← | cell surface anchored protein |
| RA | 2,010,363 | C→T | C146Y (TGT→TAT) | ygaD ← | ABC superfamily ATP binding cassette transporter, membrane protein |
| RA | 2,018,733 | (A)6→7 | coding (186/810 nt) | mgt ← | transglycosylase |
| RA | 2,143,110 | G→A | V163V (GTG→GTA) | USA300HOU_2026 → | hypothetical membrane protein |
| RA | 2,274,965 | G→C | E106D (GAG→GAC) | bglG → | transcriptional antiterminator |
| RA | 2,279,705 | G→A | intergenic (+1373/+6659) | mtlD → / ← glmM | mannitol‑1‑phosphate 5‑dehydrogenase/phosphoglucosamine mutase |
| RA | 2,315,088 | T→A | K61I (AAA→ATA) | rhbC ← | MFS family major facilitator transporter |
| RA | 2,342,380 | A→C | L78V (TTG→GTG) | USA300HOU_2199 ← | possible HAD superfamily hydrolase |
| RA | 2,388,866 | A→G | G8G (GGA→GGG) | USA300HOU_2249 → | hypothetical protein |
| RA | 2,532,298 | A→T | T15T (ACA→ACT) | murN → | FemAB family peptidoglycan biosynthesis protein |
| RA | 2,679,650 | G→A | C45Y (TGT→TAT) | cbpD → | possible secretory antigen |
| RA | 2,709,600 | (T)5→4 | coding (1327/1812 nt) | oatA ← | possible acetyltransferase |
| RA | 2,856,087 | T→A | P80P (CCT→CCA) | USA300HOU_2698 → | hypothetical protein |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | CP000730 | 2176668–2181133 | 2181133 | 1–4466 | 15 [14] | [14] 15 | [rrl4]–[rrs4] | [rrl4],[rrs4] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | 512620 = | 46 (1.210) | 37 (1.370) +40 bp |
28/196 | 0.1 | 53.1% | 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 | 2504852 = | 59 (1.550) | 20 (0.650) | 11/222 | 2.2 | 28.5% | intergenic (+156/+248) | USA300HOU_2365/gltT | hypothetical protein/DAACS family dicarboxylate/amino acid:sodium (Na+) or proton (H+) symporter |
| ? | CP000730 | = 2505034 | 53 (1.730) | intergenic (+338/+66) | USA300HOU_2365/gltT | hypothetical protein/DAACS family dicarboxylate/amino acid:sodium (Na+) or proton (H+) symporter | |||||