mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.2 revision caddc01d3be9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 96 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 | 68.8% | 32.8 / 13.6 | 16 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 63.2% | 12.3 / 12.9 | 20 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 63.2% | 14.9 / 26.7 | 20 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 60.0% | 38.1 / 24.3 | 20 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,749 | 0 | A | G | 52.4% | ‑2.6 / 80.3 | 63 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,725 | 0 | A | G | 48.6% | 1.3 / 37.1 | 35 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,127 | 0 | C | T | 48.5% | 18.1 / 95.5 | 68 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 2,282,813 | 0 | T | G | 44.1% | 18.9 / 35.2 | 34 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,224,557 | 0 | C | T | 41.4% | 10.8 / 29.9 | 29 | intergenic (‑213/+166) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| * | NC_002947 | 322,135 | 0 | G | A | 40.0% | 33.7 / 64.0 | 60 | intergenic (+420/+38) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 2,282,817 | 0 | G | C | 40.0% | 34.8 / 33.9 | 30 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 40.0% | 32.8 / 35.7 | 30 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,741,301 | 0 | A | C | 40.0% | 10.7 / 16.7 | 20 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 196,351 | 0 | C | G | 39.4% | 79.2 / 87.0 | 72 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,900 | 0 | C | G | 39.1% | 135.4 / 76.7 | 69 | intergenic (+138/‑408) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,390 | 0 | T | C | 38.5% | 76.1 / 65.0 | 65 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,875 | 0 | T | C | 37.7% | 123.2 / 67.6 | 71 | intergenic (+113/‑433) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,891 | 0 | G | C | 37.7% | 141.7 / 76.8 | 69 | intergenic (+129/‑417) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,880 | 0 | C | T | 37.1% | 119.3 / 67.9 | 70 | intergenic (+118/‑428) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,881 | 0 | G | T | 37.1% | 138.9 / 61.3 | 70 | intergenic (+119/‑427) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 358 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 5734099 = | 56 (1.240) | 12 (0.300) | 10/234 | 3.0 | 19.4% | intergenic (‑69/+88) | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase |
| ? | NC_002947 | 5734152 = | 50 (1.250) | intergenic (‑122/+35) | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase | |||||
| * | ? | NC_002947 | = 2057866 | 55 (1.220) | 10 (0.270) | 9/216 | 3.0 | 15.8% | intergenic (+39/+89) | PP_1832/PP_1833 | oxidase/hypothetical protein |
| ? | NC_002947 | = 2057906 | 62 (1.690) | intergenic (+79/+49) | PP_1832/PP_1833 | oxidase/hypothetical protein | |||||
| * | ? | NC_002947 | = 380858 | 66 (1.470) | 12 (0.320) | 9/218 | 3.0 | 18.6% | intergenic (+45/+64) | gbcB/PP_0317 | glycine‑betaine dioxygenase subunit/methyl‑accepting chemotaxis transducer |
| ? | NC_002947 | = 380892 | 51 (1.370) | intergenic (+79/+30) | gbcB/PP_0317 | glycine‑betaine dioxygenase subunit/methyl‑accepting chemotaxis transducer | |||||
| * | ? | NC_002947 | = 5201663 | 22 (0.490) | 8 (0.250) | 7/190 | 3.1 | 42.3% | intergenic (‑101/‑79) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | = 5201684 | 6 (0.190) | intergenic (‑122/‑58) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | 309297 = | 42 (0.930) | 11 (0.270) | 10/242 | 3.1 | 21.9% | intergenic (+1/+56) | PP_0254/PP_0255 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | 309327 = | 40 (0.970) | intergenic (+31/+26) | PP_0254/PP_0255 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 2236962 = | 44 (0.980) | 9 (0.230) | 9/232 | 3.2 | 18.4% | intergenic (+14/+114) | uvrB/PP_1975 | uvrABC excinuclease protein B/EmrB/QacA family drug resistance transporter |
| ? | NC_002947 | 2237053 = | 41 (1.040) | intergenic (+105/+23) | uvrB/PP_1975 | uvrABC excinuclease protein B/EmrB/QacA family drug resistance transporter | |||||
| * | ? | NC_002947 | 1114875 = | 47 (1.040) | 9 (0.250) | 8/214 | 3.2 | 19.6% | intergenic (‑64/+115) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase |
| ? | NC_002947 | 1114951 = | 36 (0.990) | intergenic (‑140/+39) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase | |||||
| * | ? | NC_002947 | 85049 = | 63 (1.400) | 11 (0.280) | 9/230 | 3.2 | 16.0% | intergenic (+27/+103) | aroE/PP_0075 | shikimate 5‑dehydrogenase/choline sulfate transporter |
| ? | NC_002947 | 85122 = | 61 (1.560) | intergenic (+100/+30) | aroE/PP_0075 | shikimate 5‑dehydrogenase/choline sulfate transporter | |||||
| * | ? | NC_002947 | = 4852498 | 26 (0.580) | 6 (0.190) | 6/182 | 3.3 | 20.7% | intergenic (‑124/+173) | recR/ybaB | recombination protein RecR/nucleoid‑associated broad specificity regulator |
| ? | NC_002947 | = 4852557 | 28 (0.900) | intergenic (‑183/+114) | recR/ybaB | recombination protein RecR/nucleoid‑associated broad specificity regulator | |||||
| * | ? | NC_002947 | 1037774 = | 79 (1.750) | 8 (0.220) | 8/218 | 3.3 | 11.8% | intergenic (+16/+100) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase |
| ? | NC_002947 | 1037852 = | 54 (1.450) | intergenic (+94/+22) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase | |||||