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 29 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,348,705 | 0 | A | G | 55.1% | ‑1.3 / 109.5 | 89 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,722 | 0 | A | G | 45.6% | 16.3 / 84.7 | 69 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,121 | 0 | C | T | 43.0% | 68.4 / 115.8 | 100 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 38.5% | 88.4 / 102.9 | 104 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,390 | 0 | T | C | 34.3% | 77.2 / 59.9 | 70 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,351 | 0 | C | G | 30.9% | 145.0 / 73.4 | 94 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,779 | 0 | C | A | 28.3% | 55.7 / 29.9 | 46 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 6,009,152 | 0 | C | . | 27.8% | 78.5 / 32.5 | 38 | intergenic (+49/+33) | norM/PP_5263 | multidrug resistance protein NorM/GGDEF domain‑containing protein |
| * | NC_002947 | 6,009,149 | 0 | G | A | 25.6% | 65.6 / 20.6 | 39 | intergenic (+46/+36) | norM/PP_5263 | multidrug resistance protein NorM/GGDEF domain‑containing protein |
| * | NC_002947 | 6,009,150 | 0 | G | A | 25.6% | 67.7 / 20.7 | 39 | intergenic (+47/+35) | norM/PP_5263 | multidrug resistance protein NorM/GGDEF domain‑containing protein |
| * | NC_002947 | 6,004,994 | 0 | G | C | 25.5% | 92.0 / 32.4 | 51 | intergenic (+32/‑144) | PP_5259/ydcJ | LysR family transcriptional regulator/metalloprotein |
| * | NC_002947 | 196,327 | 0 | A | C | 25.5% | 193.4 / 69.5 | 109 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,306 | 0 | T | C | 25.4% | 207.0 / 68.7 | 114 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,590 | 0 | T | C | 25.4% | 200.0 / 68.4 | 119 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,775 | 0 | G | C | 25.0% | 71.1 / 24.4 | 45 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 6,009,139 | 1 | . | G | 25.0% | 99.4 / 41.6 | 40 | intergenic (+36/+46) | norM/PP_5263 | multidrug resistance protein NorM/GGDEF domain‑containing protein |
| * | NC_002947 | 2,282,774 | 0 | G | C | 24.4% | 70.2 / 27.9 | 45 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 196,879 | 0 | G | A | 24.1% | 49.6 / 12.5 | 30 | V795V (GTG→GTA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 6,004,997 | 0 | A | T | 23.5% | 78.7 / 25.9 | 51 | intergenic (+35/‑141) | PP_5259/ydcJ | LysR family transcriptional regulator/metalloprotein |
| * | NC_002947 | 6,005,000 | 0 | G | C | 23.4% | 81.4 / 27.9 | 47 | intergenic (+38/‑138) | PP_5259/ydcJ | LysR family transcriptional regulator/metalloprotein |
| Marginal new junction evidence (lowest skew 10 of 510 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 4808174 = | 4 (0.070) | 20 (0.440) | 12/214 | 3.6 | 51.9% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 34 (0.740) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 1298186 = | NA (NA) | 16 (0.260) | 12/282 | 5.1 | NA | intergenic (+45/+384) | PP_1133/PP_1134 | transposase/hypothetical protein |
| ? | NC_002947 | 1298206 = | NA (NA) | intergenic (+65/+364) | PP_1133/PP_1134 | transposase/hypothetical protein | |||||
| * | ? | NC_002947 | 2957072 = | 54 (0.890) | 10 (0.180) | 10/254 | 5.2 | 17.1% | intergenic (+27/‑169) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein |
| ? | NC_002947 | 2957159 = | 49 (0.900) | intergenic (+114/‑82) | PP_2588/PP_2589 | class III aminotransferase/aldehyde dehydrogenase family protein | |||||
| * | ? | NC_002947 | = 5914184 | 52 (0.850) | 10 (0.200) | 8/228 | 5.3 | 18.9% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | = 5914224 | 44 (0.900) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 2050559 = | 53 (0.870) | 8 (0.180) | 7/210 | 5.3 | 20.0% | intergenic (‑52/+123) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein |
| ? | NC_002947 | 2050669 = | 25 (0.550) | intergenic (‑162/+13) | PP_1824/PP_1825 | Smr domain‑containing protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 4808179 | 8 (0.130) | 11 (0.200) +CGGCGCTTCGCGG |
9/258 | 5.6 | 32.2% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4945216 = | 43 (0.700) | intergenic (+576/+222) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein | |||||
| * | ? | NC_002947 | 4787374 = | 86 (1.410) | 9 (0.150) | 9/272 | 5.9 | 9.8% | coding (6466/6525 nt) | pvdI | non‑ribosomal peptide synthetase |
| ? | NC_002947 | 4787413 = | 83 (1.420) | coding (6427/6525 nt) | pvdI | non‑ribosomal peptide synthetase | |||||
| * | ? | NC_002947 | = 4908303 | 16 (0.260) | 10 (0.170) | 9/278 | 6.0 | 39.0% | intergenic (‑279/‑3) | PP_4317/PP_4318 | hypothetical protein/transposase |
| ? | NC_002947 | = 4908336 | NA (NA) | coding (31/1302 nt) | PP_4318 | transposase | |||||
| * | ? | NC_002947 | = 2869425 | 6 (0.100) | 10 (0.170) | 9/278 | 6.0 | 47.8% | coding (34/1302 nt) | PP_2522 | transposase |
| ? | NC_002947 | = 4908300 | 16 (0.270) | intergenic (‑276/‑6) | PP_4317/PP_4318 | hypothetical protein/transposase | |||||
| * | ? | NC_002947 | = 2529274 | NA (NA) | 10 (0.170) | 9/278 | 6.0 | 63.0% | intergenic (+401/‑6) | PP_2217/PP_2218 | enoyl‑CoA hydratase/transposase |
| ? | NC_002947 | = 2869425 | 6 (0.100) | coding (34/1302 nt) | PP_2522 | transposase | |||||