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 | 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 |
| JC | USA300TCH1516_ALE | 62,818 | +CAATTT | intergenic (‑285/+228) | USA300TCH1516_00053 ← / ← speG | hypothetical protein/Spermidine N(1)‑acetyltransferase |
| RA | USA300TCH1516_ALE | 742,735 | C→T | intergenic (+572/‑125) | ybhL → / → melR_1 | Inner membrane protein YbhL/Melibiose operon regulatory protein |
| RA | USA300TCH1516_ALE | 849,203 | A→G | Y110C (TAT→TGT) | USA300HOU_RS04145 → | Nucleotide‑binding protein |
| RA | USA300TCH1516_ALE | 1,416,458 | A→T | I216N (ATT→AAT) | oppD_4 ← | Oligopeptide transport ATP‑binding protein OppD |
| 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 | 1,774,221 | G→T | A27D (GCC→GAC) | hemA ← | Glutamyl‑tRNA reductase |
| RA | USA300TCH1516_ALE | 1,891,904 | (T)6→5 | coding (4/402 nt) | rot ← | HTH‑type transcriptional regulator rot |
| RA | USA300TCH1516_ALE | 1,902,155 | C→T | A105A (GCC→GCT) | arsB → | Arsenical pump membrane protein |
| 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 | 2,373,019 | G→A | Q253* (CAG→TAG) | pbuG ← | Guanine/hypoxanthine permease PbuG |
| RA | USA300TCH1516_ALE | 2,532,298 | A→T | T15T (ACA→ACT) | femA_3 → | Aminoacyltransferase FemA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | USA300TCH1516_ALE | 2176703–2181102 | 2181102 | 1–4400 | 9 [6] | [7] 8 | ilvA/USA300TCH1516_02069 | L‑threonine dehydratase biosynthetic IlvA/tRNA‑Gly |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 512620 = | 34 (0.950) | 24 (0.940) +40 bp |
16/200 | 0.3 | 49.8% | intergenic (+688/‑6075) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| ? | USA300TCH1516_ALE | 1998278 = | NA (NA) | intergenic (‑6/+3329) | USA300TCH1516_01882/USA300TCH1516_01883 | tRNA‑Val/tRNA‑Ala | |||||
| * | ? | USA300TCH1516_ALE | 2085296 = | 38 (1.060) | 15 (0.470) | 8/252 | 1.6 | 35.2% | coding (173/201 nt) | hlb_1 | Phospholipase C |
| ? | USA300TCH1516_ALE | = 2128343 | 21 (0.650) | coding (1/825 nt) | hlb_2 | Phospholipase C | |||||
| * | ? | USA300TCH1516_ALE | 2476329 = | 30 (0.840) | 9 (0.260) | 5/268 | 2.6 | 23.5% | intergenic (‑74/+166) | tcaA/tcaR | Membrane‑associated protein TcaA/HTH‑type transcriptional regulator TcaR |
| ? | USA300TCH1516_ALE | = 2476325 | 30 (0.880) | intergenic (‑70/+170) | tcaA/tcaR | Membrane‑associated protein TcaA/HTH‑type transcriptional regulator TcaR | |||||