breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
Predicted mutations | ||||||
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evidence | seq id | position | mutation | annotation | gene | description |
RA | CP000731 | 81 | N→G | intergenic (–/‑151) | – / → repA | –/replication protein A |
JC | CP000731 | 6,552 | +28 bp | intergenic (+1069/‑419) | cadX → / → USA300HOU_pUSA300HOUMR0010 | cadmium efflux regulator/MarR family transcriptional regulator |
RA | CP000731 | 25,669 | (A)7→6 | coding (322/333 nt) | USA300HOU_pUSA300HOUMR0031 → | hypothetical protein |
RA | USA300TCH1516_ALE | 76,969 | G→A | intergenic (+509/‑107) | USA300HOU_RS00140 → / → USA300HOU_RS00350 | hypothetical protein/Monoacylglycerol lipase |
RA | USA300TCH1516_ALE | 195,286 | T→A | intergenic (‑97/‑82) | USA300HOU_RS00900 ← / → USA300HOU_RS00905 | hypothetical protein/hypothetical protein |
RA | USA300TCH1516_ALE | 396,540 | G→A | A208T (GCA→ACA) | efeM → | putative iron uptake system component EfeM |
RA | USA300TCH1516_ALE | 607,884 | G→A | R209* (CGA→TGA) | dck ← | Deoxyadenosine/deoxycytidine kinase |
RA | USA300TCH1516_ALE | 629,681 | C→A | L84I (CTA→ATA) | USA300HOU_RS02990 → | 3‑hexulose‑6‑phosphate synthase |
RA | USA300TCH1516_ALE | 665,392 | T→G | L79* (TTA→TGA) | paiA_1 → | Spermidine/spermine N(1)‑acetyltransferase |
RA | USA300TCH1516_ALE | 707,910 | A→G | intergenic (‑1/‑121) | znuC_1 ← / → ideR | High‑affinity zinc uptake system ATP‑binding protein ZnuC/Iron‑dependent repressor IdeR |
RA | USA300TCH1516_ALE | 1,233,504 | T→A | V470D (GTT→GAT) | prkC → | Serine/threonine‑protein kinase PrkC |
RA | USA300TCH1516_ALE | 1,416,458 | A→T | I216N (ATT→AAT) | oppD_4 ← | Oligopeptide transport ATP‑binding protein OppD |
RA | USA300TCH1516_ALE | 1,440,085 | G→T | intergenic (‑45/+126) | cspA_2 ← / ← USA300TCH1516_01338 | Cold shock protein CspA/hypothetical protein |
RA | USA300TCH1516_ALE | 1,513,930 | A→T | L413F (TTA→TTT) | USA300HOU_RS07375 → | hypothetical protein |
RA | USA300TCH1516_ALE | 1,646,189 | G→C | A155G (GCA→GGA) | ypdF ← | Aminopeptidase YpdF |
RA | USA300TCH1516_ALE | 1,744,362 | G→A | H104Y (CAC→TAC) | apt ← | Adenine phosphoribosyltransferase |
RA | USA300TCH1516_ALE | 1,761,889 | C→A | D388Y (GAT→TAT) | fpgS ← | Folylpolyglutamate synthase |
RA | USA300TCH1516_ALE | 1,963,768 | C→G | V365L (GTA→CTA) | hemY ← | Protoporphyrinogen oxidase |
RA | USA300TCH1516_ALE | 2,010,363 | C→T | C146Y (TGT→TAT) | USA300HOU_RS10125 ← | Putative multidrug export ATP‑binding/permease protein |
RA | USA300TCH1516_ALE | 2,279,705 | G→A | A943V (GCA→GTA) | ebh_3 ← | Extracellular matrix‑binding protein ebh |
RA | USA300TCH1516_ALE | 2,352,815 | G→A | A92V (GCA→GTA) | rpsI ← | 30S ribosomal protein S9 |
RA | USA300TCH1516_ALE | 2,454,626 | A→T | L48L (CTA→CTT) | lyrA → | Lysostaphin resistance protein A |
RA | USA300TCH1516_ALE | 2,532,298 | A→T | T15T (ACA→ACT) | femA_3 → | Aminoacyltransferase FemA |
Unassigned new junction evidence | |||||||||||
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seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | USA300TCH1516_ALE | = 1205323 | 136 (1.340) | 146 (2.480) +38 bp |
18/104 | 2.9 | 67.1% | intergenic (‑204/‑365) | USA300HOU_RS15290/lspA | hypothetical protein/Lipoprotein signal peptidase |
? | USA300TCH1516_ALE | 2478252 = | 112 (1.100) | intergenic (+139/‑436) | USA300HOU_RS12760/USA300HOU_RS12765 | hypothetical protein/hypothetical protein |