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 87 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,280 | 0 | C | T | 73.2% | 57.4 / 23.0 | 41 | intergenic (+471/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,277 | 0 | C | T | 70.7% | 53.8 / 23.1 | 41 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 65.8% | 86.9 / 49.1 | 41 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 65.8% | 43.0 / 28.5 | 41 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 58.3% | 28.8 / 44.4 | 49 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 56.2% | 14.3 / 91.5 | 49 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 55.1% | 92.0 / 78.6 | 49 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 51.5% | 31.3 / 138.7 | 103 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 5,545,210 | 0 | A | T | 44.4% | ‑0.5 / 19.5 | 18 | intergenic (‑302/+575) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| * | NC_002947 | 5,545,211 | 0 | A | C | 44.4% | ‑2.1 / 20.0 | 18 | intergenic (‑303/+574) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| * | NC_002947 | 4,741,301 | 0 | A | C | 42.5% | 26.1 / 48.9 | 49 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 41.7% | 28.7 / 45.5 | 49 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 40.8% | 40.1 / 49.3 | 49 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,545,209 | 0 | G | T | 40.0% | 8.9 / 17.1 | 20 | intergenic (‑301/+576) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| * | NC_002947 | 195,634 | 0 | C | T | 39.0% | 80.9 / 95.6 | 95 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 38.8% | 62.2 / 74.1 | 80 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,725 | 0 | A | G | 37.5% | 42.0 / 59.6 | 64 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 2,282,813 | 0 | T | G | 35.7% | 33.5 / 39.6 | 42 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,655,687 | 0 | C | A | 35.0% | 72.4 / 50.4 | 60 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 4,741,274 | 0 | A | C | 34.2% | 45.6 / 28.3 | 41 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Marginal new junction evidence (lowest skew 10 of 806 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 5159794 = | 61 (1.010) | 13 (0.280) | 12/208 | 3.3 | 22.1% | intergenic (+9/+97) | PP_4542/PP_4543 | ABC transporter ATP‑binding protein/permease/hypothetical protein |
| ? | NC_002947 | 5159871 = | 45 (0.970) | intergenic (+86/+20) | PP_4542/PP_4543 | ABC transporter ATP‑binding protein/permease/hypothetical protein | |||||
| * | ? | NC_002947 | = 2429960 | 42 (0.690) | 11 (0.240) | 11/204 | 3.5 | 30.3% | intergenic (+47/+66) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase |
| ? | NC_002947 | = 2429975 | 19 (0.420) | intergenic (+62/+51) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase | |||||
| * | ? | NC_002947 | = 1967220 | 48 (0.790) | 14 (0.310) | 11/204 | 3.5 | 29.7% | intergenic (+47/+72) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | = 1967250 | 30 (0.660) | intergenic (+77/+42) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 445088 | 67 (1.110) | 16 (0.330) | 12/216 | 3.5 | 23.8% | intergenic (+58/‑230) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase |
| ? | NC_002947 | = 445127 | 49 (1.010) | intergenic (+97/‑191) | PP_0367/PP_0368 | hypothetical protein/acyl‑CoA dehydrogenase | |||||
| * | ? | NC_002947 | 5740499 = | 59 (0.970) | 18 (0.330) | 13/242 | 3.7 | 27.5% | intergenic (+8/+63) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| ? | NC_002947 | 5740555 = | 42 (0.770) | intergenic (+64/+7) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein | |||||
| * | ? | NC_002947 | = 5382480 | 34 (0.560) | 10 (0.220) | 10/200 | 3.7 | 29.8% | intergenic (+52/+81) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR |
| ? | NC_002947 | = 5382508 | 22 (0.490) | intergenic (+80/+53) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR | |||||
| * | ? | NC_002947 | = 5201663 | 41 (0.680) | 10 (0.230) | 9/196 | 3.9 | 28.7% | intergenic (‑101/‑79) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | = 5201684 | 20 (0.460) | intergenic (‑122/‑58) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | = 4861197 | 106 (1.750) | 13 (0.260) | 11/220 | 3.9 | 14.5% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 67 (1.360) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | = 1156326 | 35 (0.580) | 14 (0.260) | 12/238 | 3.9 | 27.0% | intergenic (+23/‑193) | PP_1013/yihS | sensor histidine kinase/aldose‑ketose isomerase |
| ? | NC_002947 | = 1156401 | 45 (0.840) | intergenic (+98/‑118) | PP_1013/yihS | sensor histidine kinase/aldose‑ketose isomerase | |||||
| * | ? | NC_002947 | = 1114899 | 55 (0.910) | 12 (0.240) | 11/220 | 3.9 | 20.2% | intergenic (‑88/+91) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase |
| ? | NC_002947 | = 1114925 | 50 (1.010) | intergenic (‑114/+65) | rlmF/valS | ribosomal RNA large subunit methyltransferase F/valine‑‑tRNA ligase | |||||