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 117 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 699,725 | 0 | A | G | 63.3% | 34.2 / 41.5 | 49 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,273 | 1 | . | C | 63.0% | 53.1 / 35.9 | 27 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 63.0% | 19.1 / 22.2 | 27 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,749 | 0 | A | G | 60.6% | 27.7 / 69.9 | 71 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 60.0% | 59.5 / 40.7 | 30 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 60.0% | 18.6 / 49.0 | 30 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 58.6% | 20.6 / 21.1 | 30 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 55.4% | ‑2.5 / 67.2 | 56 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 5,655,687 | 0 | C | A | 47.6% | 10.1 / 57.0 | 42 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 195,634 | 0 | C | T | 47.4% | 21.3 / 94.2 | 76 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,813 | 0 | T | G | 43.8% | 24.2 / 61.6 | 48 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,655,682 | 0 | T | G | 43.2% | 17.8 / 55.7 | 44 | intergenic (‑86/+66) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 4,049,951 | 0 | A | G | 42.1% | 15.3 / 40.7 | 38 | intergenic (+40/‑61) | quiA/oprB‑III | quinate dehydrogenase/carbohydrate‑selective porin |
| * | NC_002947 | 5,988,945 | 0 | C | A | 41.1% | 87.2 / 75.3 | 73 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,049,954 | 0 | C | G | 40.0% | 24.0 / 49.4 | 40 | intergenic (+43/‑58) | quiA/oprB‑III | quinate dehydrogenase/carbohydrate‑selective porin |
| * | NC_002947 | 4,049,957 | 0 | C | T | 40.0% | 17.9 / 41.5 | 40 | intergenic (+46/‑55) | quiA/oprB‑III | quinate dehydrogenase/carbohydrate‑selective porin |
| * | NC_002947 | 4,741,299 | 0 | C | T | 40.0% | 17.9 / 24.2 | 30 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 40.0% | 18.4 / 28.1 | 30 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 40.0% | 23.6 / 29.1 | 30 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,951 | 0 | A | G | 40.0% | 82.1 / 77.5 | 75 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 450 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4896443 | 36 (0.710) | 16 (0.370) | 11/224 | 3.1 | 32.9% | intergenic (+31/‑177) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | = 4896490 | 35 (0.820) | intergenic (+78/‑130) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | = 1970782 | 51 (1.010) | 17 (0.390) | 11/226 | 3.1 | 29.2% | intergenic (+33/‑233) | mtnA/PP_mr25 | methylthioribose‑1‑phosphate isomerase/gyrA regulatory region |
| ? | NC_002947 | = 1970844 | 39 (0.910) | intergenic (+95/‑171) | mtnA/PP_mr25 | methylthioribose‑1‑phosphate isomerase/gyrA regulatory region | |||||
| * | ? | NC_002947 | = 181536 | NA (NA) | 38 (0.780) | 13/256 | 3.1 | 44.1% | intergenic (+2/‑131) | PP_23SB/PP_r01 | 23S ribosomal RNA/5S ribosomal RNA |
| ? | NC_002947 | = 702778 | 50 (0.990) | intergenic (+23/‑109) | PP_23SD/PP_5SD | 23S ribosomal RNA/5S ribosomal RNA | |||||
| * | ? | NC_002947 | = 614300 | 29 (0.570) | 10 (0.260) | 9/204 | 3.2 | 32.7% | intergenic (‑116/+62) | dxs/ispA | 1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase |
| ? | NC_002947 | = 614316 | 19 (0.490) | intergenic (‑132/+46) | dxs/ispA | 1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase | |||||
| * | ? | NC_002947 | 235331 = | 91 (1.790) | 16 (0.360) | 11/234 | 3.2 | 18.4% | intergenic (+28/+97) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase |
| ? | NC_002947 | 235390 = | 62 (1.390) | intergenic (+87/+38) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase | |||||
| * | ? | NC_002947 | 5870317 = | 50 (0.990) | 9 (0.230) | 9/208 | 3.3 | 18.0% | intergenic (+22/+112) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator |
| ? | NC_002947 | 5870410 = | 43 (1.080) | intergenic (+115/+19) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator | |||||
| * | ? | NC_002947 | = 4586100 | 12 (0.240) | 8 (0.220) | 8/190 | 3.3 | 54.1% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 5 (0.140) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 5594170 | 55 (1.080) | 14 (0.350) | 9/210 | 3.4 | 23.8% | intergenic (‑66/+79) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase |
| ? | NC_002947 | = 5594207 | 46 (1.150) | intergenic (‑103/+42) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase | |||||
| * | ? | NC_002947 | = 414024 | 54 (1.070) | 10 (0.250) | 9/210 | 3.4 | 18.2% | intergenic (+41/‑162) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II |
| ? | NC_002947 | = 414054 | 47 (1.170) | intergenic (+71/‑132) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II | |||||
| * | ? | NC_002947 | 2100003 = | 41 (0.810) | 11 (0.260) | 9/220 | 3.5 | 27.5% | intergenic (‑71/‑134) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| ? | NC_002947 | 2100098 = | 24 (0.570) | intergenic (‑166/‑39) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein | |||||