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 51 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% | 109.1 / 56.8 | 50 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 68.0% | 56.1 / 34.7 | 50 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 63.4% | 66.9 / 89.1 | 93 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 51.7% | ‑3.5 / 78.4 | 58 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 51.7% | 8.4 / 78.0 | 58 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 51.7% | 11.4 / 98.5 | 58 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 51.7% | 76.1 / 117.3 | 58 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 51.6% | 34.1 / 171.2 | 124 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,298 | 1 | . | T | 48.3% | 95.2 / 138.5 | 58 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 48.3% | ‑5.7 / 78.6 | 58 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,749 | 0 | A | G | 47.8% | 27.6 / 179.4 | 136 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 2,282,813 | 0 | T | G | 47.1% | 12.1 / 108.1 | 70 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,817 | 0 | G | C | 46.7% | 39.2 / 94.5 | 60 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 46.7% | 36.6 / 88.9 | 60 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,822 | 0 | C | A | 43.5% | 63.8 / 54.6 | 64 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 195,634 | 0 | C | T | 43.5% | 131.3 / 254.5 | 214 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,950 | 0 | C | T | 37.8% | 167.7 / 145.1 | 143 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 37.3% | 175.7 / 144.5 | 143 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,961 | 0 | T | C | 36.6% | 174.3 / 133.6 | 142 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,842,949 | 1 | . | G | 36.4% | 94.5 / 112.1 | 66 | intergenic (+48/‑249) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| Marginal new junction evidence (lowest skew 10 of 702 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 6006595 = | 68 (0.710) | 32 (0.460) | 21/198 | 3.3 | 45.8% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 26 (0.370) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 5477138 = | 73 (0.760) | 25 (0.380) | 20/188 | 3.3 | 36.9% | intergenic (+3/+109) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | 5477237 = | 35 (0.530) | intergenic (+102/+10) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | = 4861197 | 161 (1.680) | 31 (0.400) | 23/220 | 3.5 | 20.9% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 104 (1.330) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | 5201627 = | 61 (0.640) | 21 (0.300) | 17/196 | 4.2 | 37.5% | intergenic (‑65/‑115) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201722 = | 26 (0.370) | intergenic (‑160/‑20) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | 6009165 = | 63 (0.660) | 19 (0.260) | 15/204 | 4.9 | 33.8% | intergenic (+6/+76) | norM/PP_5263 | multidrug resistance protein NorM/GGDEF domain‑containing protein |
| ? | NC_002947 | 6009242 = | 27 (0.370) | coding (1667/1668 nt) | PP_5263 | GGDEF domain‑containing protein | |||||
| * | ? | NC_002947 | = 5653009 | 122 (1.270) | 25 (0.310) | 17/228 | 5.0 | 18.9% | intergenic (‑59/+102) | PP_4961/PP_4962 | lipoprotein/hypothetical protein |
| ? | NC_002947 | = 5653023 | 111 (1.370) | intergenic (‑73/+88) | PP_4961/PP_4962 | lipoprotein/hypothetical protein | |||||
| * | ? | NC_002947 | 358055 = | 53 (0.550) | 18 (0.250) | 13/204 | 5.5 | 37.1% | intergenic (+20/‑110) | tdcG‑I/PP_5441 | L‑serine dehydratase/hypothetical protein |
| ? | NC_002947 | 358133 = | 21 (0.290) | intergenic (+98/‑32) | tdcG‑I/PP_5441 | L‑serine dehydratase/hypothetical protein | |||||
| * | ? | NC_002947 | = 4896443 | 71 (0.740) | 21 (0.260) | 15/228 | 5.6 | 24.6% | intergenic (+31/‑177) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | = 4896490 | 69 (0.850) | intergenic (+78/‑130) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | = 5506637 | 83 (0.860) | 18 (0.240) | 13/212 | 5.7 | 24.6% | intergenic (+48/‑151) | PP_4839/cycA | iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease |
| ? | NC_002947 | = 5506650 | 45 (0.600) | intergenic (+61/‑138) | PP_4839/cycA | iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease | |||||
| * | ? | NC_002947 | 5914213 = | 55 (0.570) | 13 (0.170) | 13/214 | 5.8 | 22.1% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914309 = | 48 (0.630) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||