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 69 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,273 | 1 | . | C | 68.0% | 51.8 / 26.2 | 25 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 68.0% | 22.1 / 17.1 | 25 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 60.0% | 27.6 / 55.6 | 56 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 59.5% | 26.7 / 76.5 | 74 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 56.7% | 0.6 / 104.0 | 90 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 53.1% | ‑4.3 / 39.1 | 32 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 53.1% | 0.6 / 39.8 | 32 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 50.0% | 2.0 / 40.6 | 32 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 50.0% | 41.0 / 59.3 | 32 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 46.9% | 48.2 / 69.1 | 32 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 46.9% | ‑5.4 / 39.4 | 32 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 196,390 | 0 | T | C | 41.5% | 60.1 / 68.9 | 65 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,351 | 0 | C | G | 38.5% | 86.9 / 91.3 | 78 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,274 | 0 | A | C | 36.0% | 21.4 / 17.4 | 25 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 195,634 | 0 | C | T | 35.4% | 124.5 / 99.0 | 113 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,327 | 0 | A | C | 33.3% | 101.3 / 80.9 | 81 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,705,460 | 0 | T | A | 31.7% | 53.8 / 36.8 | 42 | intergenic (‑152/+25) | kdpF/PP_4162 | potassium‑transporting ATPase subunit F/membrane protein |
| * | NC_002947 | 196,306 | 0 | T | C | 31.0% | 129.7 / 67.6 | 87 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,705,459 | 0 | T | A | 30.9% | 54.1 / 36.5 | 42 | intergenic (‑151/+26) | kdpF/PP_4162 | potassium‑transporting ATPase subunit F/membrane protein |
| * | NC_002947 | 1,435,822 | 0 | A | T | 26.7% | 100.0 / 43.5 | 60 | L50Q (CTG→CAG) | PP_1256 | alpha‑ketoglutarate semialdehyde dehydrogenase |
| Marginal new junction evidence (lowest skew 10 of 748 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 5743386 | 62 (1.250) | 15 (0.320) | 14/246 | 2.6 | 19.6% | intergenic (‑163/+84) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase |
| ? | NC_002947 | = 5743450 | 65 (1.400) | intergenic (‑227/+20) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase | |||||
| * | ? | NC_002947 | = 4861197 | 77 (1.550) | 11 (0.270) | 10/214 | 3.0 | 15.9% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 54 (1.340) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | 4647603 = | 49 (0.990) | 9 (0.260) | 8/186 | 3.1 | 20.3% | intergenic (+10/+121) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | 4647711 = | 36 (1.030) | intergenic (+118/+13) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | = 614300 | 72 (1.450) | 13 (0.340) | 9/202 | 3.1 | 18.2% | intergenic (‑116/+62) | dxs/ispA | 1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase |
| ? | NC_002947 | = 614316 | 62 (1.630) | intergenic (‑132/+46) | dxs/ispA | 1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase | |||||
| * | ? | NC_002947 | = 4896443 | 57 (1.150) | 15 (0.360) | 10/222 | 3.2 | 22.1% | intergenic (+31/‑177) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | = 4896490 | 58 (1.390) | intergenic (+78/‑130) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | = 4886209 | 52 (1.050) | 9 (0.230) | 9/206 | 3.2 | 16.9% | intergenic (+43/+80) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 4886238 | 48 (1.240) | intergenic (+72/+51) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 3947957 = | 64 (1.290) | 10 (0.260) | 9/208 | 3.2 | 17.2% | coding (136/1797 nt) | PP_3483 | type II secretion system protein |
| ? | NC_002947 | 3948042 = | 46 (1.180) | coding (51/1797 nt) | PP_3483 | type II secretion system protein | |||||
| * | ? | NC_002947 | 1734855 = | 68 (1.370) | 14 (0.310) | 11/242 | 3.2 | 17.2% | intergenic (+15/+98) | tcdA/PP_1528 | tRNA cyclic N6‑threonylcarbamoyladenosine(37) synthase TcdA/hypothetical protein |
| ? | NC_002947 | 1734939 = | 72 (1.580) | intergenic (+99/+14) | tcdA/PP_1528 | tRNA cyclic N6‑threonylcarbamoyladenosine(37) synthase TcdA/hypothetical protein | |||||
| * | ? | NC_002947 | 6009165 = | 45 (0.910) | 15 (0.400) | 8/198 | 3.3 | 33.8% | intergenic (+6/+76) | norM/PP_5263 | multidrug resistance protein NorM/GGDEF domain‑containing protein |
| ? | NC_002947 | 6009242 = | 25 (0.670) | coding (1667/1668 nt) | PP_5263 | GGDEF domain‑containing protein | |||||
| * | ? | NC_002947 | 4159127 = | 83 (1.670) | 10 (0.230) | 10/232 | 3.3 | 11.8% | intergenic (+31/‑178) | PP_3661/PP_3662 | membrane protein/hypothetical protein |
| ? | NC_002947 | 4159187 = | 77 (1.760) | intergenic (+91/‑118) | PP_3661/PP_3662 | membrane protein/hypothetical protein | |||||