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 56 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,277 | 0 | C | T | 70.0% | 64.3 / 32.3 | 50 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,280 | 0 | C | T | 70.0% | 64.4 / 31.6 | 50 | intergenic (+471/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 68.0% | 111.6 / 58.2 | 50 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 68.0% | 54.1 / 37.8 | 50 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 55.0% | 12.5 / 161.1 | 129 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 53.3% | 6.4 / 169.5 | 135 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 51.8% | 65.3 / 121.4 | 56 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 51.8% | 5.3 / 67.9 | 56 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 50.9% | 96.9 / 102.1 | 56 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 50.0% | ‑2.2 / 123.3 | 88 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 50.0% | 6.0 / 66.7 | 56 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 48.2% | ‑4.6 / 77.8 | 56 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 48.2% | 15.4 / 75.9 | 56 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 195,634 | 0 | C | T | 46.1% | 82.0 / 222.6 | 182 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 322,142 | 0 | T | C | 38.3% | 77.9 / 109.3 | 116 | intergenic (+427/+31) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 322,135 | 0 | G | A | 35.6% | 109.0 / 103.7 | 115 | intergenic (+420/+38) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 2,282,813 | 0 | T | G | 34.3% | 139.6 / 144.1 | 140 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,988,961 | 0 | T | C | 34.2% | 210.3 / 126.1 | 151 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,967 | 0 | A | . | 33.3% | 311.2 / 174.3 | 143 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,741,274 | 0 | A | C | 32.0% | 56.1 / 37.3 | 50 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Marginal new junction evidence (lowest skew 10 of 1405 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 5477138 = | 91 (1.020) | 21 (0.340) | 19/180 | 3.2 | 28.3% | intergenic (+3/+109) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | 5477237 = | 44 (0.720) | intergenic (+102/+10) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | = 4586100 | 85 (0.950) | 23 (0.360) | 19/186 | 3.4 | 30.4% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 45 (0.710) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 652785 | 61 (0.690) | 37 (0.490) | 24/222 | 3.4 | 58.9% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808204 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 5743404 | 131 (1.470) | 33 (0.410) | 25/236 | 3.5 | 22.4% | intergenic (‑181/+66) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase |
| ? | NC_002947 | = 5743432 | 110 (1.370) | intergenic (‑209/+38) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase | |||||
| * | ? | NC_002947 | 5201627 = | 90 (1.010) | 25 (0.390) | 18/188 | 3.7 | 27.8% | intergenic (‑65/‑115) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201722 = | 65 (1.020) | intergenic (‑160/‑20) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | = 4808224 | 0 (0.000) | 40 (0.490) | 23/238 | 3.9 | 45.2% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 97 (1.200) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 413997 = | 126 (1.420) | 23 (0.330) | 18/206 | 4.2 | 19.9% | intergenic (+14/‑189) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II |
| ? | NC_002947 | 414083 = | 86 (1.230) | intergenic (+100/‑103) | glnE/waaF | glutamate‑ammonia‑ligase adenylyltransferase/ADP‑heptose:LPS heptosyltransferase II | |||||
| * | ? | NC_002947 | = 5653009 | 104 (1.170) | 27 (0.360) | 19/220 | 4.4 | 23.4% | intergenic (‑59/+102) | PP_4961/PP_4962 | lipoprotein/hypothetical protein |
| ? | NC_002947 | = 5653023 | 89 (1.190) | intergenic (‑73/+88) | PP_4961/PP_4962 | lipoprotein/hypothetical protein | |||||
| * | ? | NC_002947 | = 6006630 | 97 (1.090) | 19 (0.290) | 15/190 | 4.5 | 23.5% | intergenic (+42/+57) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | = 6006642 | 53 (0.820) | intergenic (+54/+45) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 5652989 = | 112 (1.260) | 29 (0.390) | 18/220 | 4.6 | 24.1% | intergenic (‑39/+122) | PP_4961/PP_4962 | lipoprotein/hypothetical protein |
| ? | NC_002947 | 5653045 = | 89 (1.190) | intergenic (‑95/+66) | PP_4961/PP_4962 | lipoprotein/hypothetical protein | |||||