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 |
| Marginal read alignment evidence (highest frequency 20 of 29 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 278,742 | 1 | . | A | 63.6% | 41.2 / 26.9 | 22 | intergenic (‑237/+77) | PP_0224/sctC | DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein |
| * | NC_002947 | 699,722 | 0 | A | G | 56.0% | 9.4 / 57.8 | 51 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,121 | 0 | C | T | 48.5% | 26.2 / 90.8 | 66 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 5,988,911 | 0 | A | . | 38.2% | 66.0 / 46.5 | 35 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 37.8% | 37.8 / 44.5 | 45 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 5,988,905 | 0 | T | C | 36.1% | 35.5 / 30.1 | 37 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 34.2% | 42.9 / 31.6 | 39 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,390 | 0 | T | C | 33.3% | 21.0 / 23.1 | 30 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,894 | 0 | C | T | 33.3% | 49.4 / 31.1 | 39 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,351 | 0 | C | G | 32.6% | 51.1 / 32.2 | 46 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,809 | 0 | G | A | 30.4% | 40.4 / 12.1 | 24 | intergenic (+103/‑443) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 197,590 | 0 | T | C | 28.6% | 43.3 / 21.0 | 37 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,889 | 0 | C | A | 28.6% | 57.5 / 22.7 | 35 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,848 | 0 | C | T | 26.9% | 49.3 / 11.8 | 26 | intergenic (+142/‑404) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,850 | 0 | C | T | 26.9% | 49.8 / 12.1 | 26 | intergenic (+144/‑402) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,559 | 0 | C | A | 26.5% | 55.6 / 15.8 | 34 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,842,896 | 0 | C | . | 26.3% | 40.7 / 13.7 | 20 | intergenic (+40/‑257) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| * | NC_002947 | 197,572 | 0 | G | A | 26.1% | 71.1 / 24.2 | 47 | K1026K (AAG→AAA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,844 | 0 | C | G | 25.9% | 59.5 / 17.0 | 27 | intergenic (+138/‑408) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 226,661 | 0 | A | T | 25.8% | 48.9 / 15.2 | 31 | intergenic (+68/‑65) | PP_0174/PP_0175 | hypothetical protein/transcriptional regulator |
| Marginal new junction evidence (lowest skew 10 of 93 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 5988771 | 19 (0.600) | 6 (0.200) | 6/274 | 3.0 | 25.0% | intergenic (+65/‑481) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947 | 5988963 = | 18 (0.600) | intergenic (+257/‑289) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 652782 | 24 (0.750) | 6 (0.220) | 5/250 | 3.1 | 36.7% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808159 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 2282748 | 21 (0.660) | 5 (0.160) | 5/278 | 3.4 | 18.8% | intergenic (‑140/+89) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| ? | NC_002947 | 2282815 = | 23 (0.750) | intergenic (‑207/+22) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein | |||||
| * | ? | NC_002947 | = 5990830 | 33 (1.040) | 4 (0.140) | 4/266 | 3.7 | 11.2% | intergenic (‑164/‑65) | ycaC‑III/PP_5249 | putative hydrolase/LysR family transcriptional regulator |
| ? | NC_002947 | = 5990850 | 33 (1.130) | intergenic (‑184/‑45) | ycaC‑III/PP_5249 | putative hydrolase/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 4886136 = | 17 (0.530) | 3 (0.120) | 3/232 | 3.7 | 15.2% | intergenic (+15/+108) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | 4886223 = | 20 (0.790) | intergenic (+102/+21) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | = 5743331 | 21 (0.660) | 4 (0.130) | 4/276 | 3.8 | 17.4% | intergenic (‑164/+83) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase |
| ? | NC_002947 | 5743394 = | 18 (0.590) | intergenic (‑227/+20) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase | |||||
| * | ? | NC_002947 | = 5429661 | 36 (1.130) | 4 (0.130) | 4/276 | 3.8 | 10.9% | coding (169/612 nt) | PP_4768 | exonuclease |
| ? | NC_002947 | = 5429683 | 31 (1.020) | coding (147/612 nt) | PP_4768 | exonuclease | |||||
| * | ? | NC_002947 | = 3753842 | 36 (1.130) | 4 (0.130) | 4/280 | 3.8 | 10.2% | coding (41/2823 nt) | PP_3316 | chaperone‑associated ATPase |
| ? | NC_002947 | = 3753865 | 36 (1.170) | coding (18/2823 nt) | PP_3316 | chaperone‑associated ATPase | |||||
| * | ? | NC_002947 | 2494682 = | 40 (1.260) | 4 (0.130) | 4/276 | 3.8 | 10.2% | intergenic (‑45/‑110) | PP_2187/PP_2188 | universal stress protein family protein/tRNA 2‑methylthio‑N6‑isopentenyl adenosine(37) hydroxylase MiaE |
| ? | NC_002947 | 2494764 = | 32 (1.060) | intergenic (‑127/‑28) | PP_2187/PP_2188 | universal stress protein family protein/tRNA 2‑methylthio‑N6‑isopentenyl adenosine(37) hydroxylase MiaE | |||||
| * | ? | NC_002947 | = 1947800 | 23 (0.720) | 3 (0.110) | 3/238 | 3.8 | 11.3% | intergenic (‑61/+109) | PP_1748/PP_1749 | hypothetical protein/acetyltransferase |
| ? | NC_002947 | = 1947867 | 28 (1.070) | intergenic (‑128/+42) | PP_1748/PP_1749 | hypothetical protein/acetyltransferase | |||||