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 66 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 | 65.9% | 94.3 / 56.0 | 44 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 65.9% | 43.2 / 34.8 | 44 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 59.3% | 122.9 / 87.2 | 59 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 59.3% | 37.0 / 60.1 | 59 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 59.3% | 34.8 / 110.6 | 59 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 56.0% | 0.5 / 171.5 | 141 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 45.9% | 54.0 / 171.9 | 135 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 42.2% | 71.8 / 182.1 | 156 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,299 | 0 | C | T | 40.7% | 40.8 / 55.9 | 59 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 40.7% | 33.2 / 66.1 | 59 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 40.7% | 48.8 / 68.9 | 59 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 196,390 | 0 | T | C | 40.6% | 113.1 / 114.0 | 106 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 699,725 | 0 | A | G | 39.8% | 68.4 / 100.4 | 98 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 196,351 | 0 | C | G | 39.3% | 185.8 / 182.6 | 150 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,655,682 | 0 | T | G | 39.0% | 85.0 / 139.5 | 118 | intergenic (‑86/+66) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,988,950 | 0 | C | T | 36.1% | 240.5 / 160.5 | 166 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 36.1% | 247.8 / 157.5 | 166 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,945 | 0 | C | A | 36.0% | 278.6 / 146.5 | 165 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,961 | 0 | T | C | 35.6% | 236.8 / 149.0 | 163 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,967 | 0 | A | . | 35.1% | 335.4 / 207.0 | 155 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 655 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4808224 | 0 (0.000) | 60 (0.660) | 31/238 | 3.1 | 54.5% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 100 (1.110) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 652785 | 71 (0.710) | 49 (0.580) | 26/222 | 3.5 | 62.0% | 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 | = 4808224 | 0 (0.000) | 48 (0.570) | 24/222 | 3.9 | 51.9% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5989005 | 89 (1.060) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 6006595 = | 50 (0.500) | 28 (0.390) | 18/190 | 4.3 | 47.4% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 26 (0.360) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 5537105 | 136 (1.370) | 32 (0.410) | 20/208 | 4.4 | 23.3% | intergenic (+34/+69) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin |
| ? | NC_002947 | = 5537127 | 103 (1.310) | intergenic (+56/+47) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin | |||||
| * | ? | NC_002947 | 4586063 = | 29 (0.290) | 18 (0.260) | 16/186 | 4.7 | 45.9% | intergenic (+102/+115) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | 4586167 = | 22 (0.310) | intergenic (+206/+11) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 4861197 | 146 (1.470) | 25 (0.310) | 19/212 | 4.8 | 17.1% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 124 (1.540) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | 1967188 = | 75 (0.750) | 21 (0.280) | 17/196 | 4.8 | 30.4% | intergenic (+15/+104) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | 1967284 = | 40 (0.540) | intergenic (+111/+8) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 883865 | 87 (0.870) | 27 (0.360) | 17/198 | 4.8 | 33.8% | intergenic (+100/‑228) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator |
| ? | NC_002947 | = 883875 | 40 (0.530) | intergenic (+110/‑218) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 181541 | NA (NA) | 55 (0.570) | 24/254 | 4.8 | NA | intergenic (+7/‑126) | PP_23SB/PP_r01 | 23S ribosomal RNA/5S ribosomal RNA |
| ? | NC_002947 | = 529685 | NA (NA) | intergenic (+18/‑102) | PP_23SC/PP_5SC | 23S ribosomal RNA/5S ribosomal RNA | |||||