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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,348,705 | 0 | A | G | 51.9% | 6.9 / 147.1 | 108 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 44.9% | 61.0 / 189.2 | 148 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,327,121 | 0 | C | T | 44.2% | 22.5 / 51.6 | 43 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 38.6% | 23.3 / 46.0 | 44 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 5,988,905 | 0 | T | C | 38.2% | 41.2 / 56.0 | 55 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,911 | 0 | A | . | 36.8% | 118.7 / 81.1 | 57 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,894 | 0 | C | T | 32.6% | 57.9 / 39.1 | 49 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 32.6% | 55.3 / 40.6 | 49 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,889 | 0 | C | A | 28.3% | 87.1 / 27.1 | 46 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,559 | 0 | C | A | 26.6% | 257.8 / 92.1 | 142 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,879 | 0 | G | A | 25.0% | 54.0 / 18.6 | 36 | V795V (GTG→GTA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,390 | 0 | T | C | 23.5% | 177.3 / 54.9 | 98 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,351 | 0 | C | G | 21.9% | 248.7 / 78.3 | 129 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,327 | 0 | A | C | 21.3% | 293.2 / 90.4 | 141 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,590 | 0 | T | C | 21.0% | 310.9 / 80.7 | 165 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,632 | 0 | T | C | 20.0% | 253.9 / 63.1 | 136 | T1046T (ACT→ACC) | PP_0168 | putative surface adhesion protein |
| Marginal new junction evidence (lowest skew 10 of 31 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 652782 | 70 (0.970) | 10 (0.160) | 9/242 | 5.4 | 24.7% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808159 | 1 (0.020) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4647595 | 47 (0.650) | 5 (0.100) | 5/204 | 6.2 | 12.8% | intergenic (+48/+83) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | = 4647625 | 34 (0.650) | intergenic (+78/+53) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | = 4808179 | 1 (0.010) | 17 (0.260) | 6/258 | 6.9 | 36.2% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988765 = | 59 (0.890) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4773087 | 103 (1.430) | 4 (0.060) | 4/264 | 7.9 | 4.0% | coding (6180/10413 nt) | pvdD | non‑ribosomal peptide synthetase |
| ? | NC_002947 | = 4773150 | 97 (1.440) | coding (6117/10413 nt) | pvdD | non‑ribosomal peptide synthetase | |||||
| * | ? | NC_002947 | 2524484 = | 84 (1.170) | 4 (0.060) | 4/262 | 7.9 | 4.5% | coding (1206/1686 nt) | PP_2213 | acyl‑CoA synthetase |
| ? | NC_002947 | 2524563 = | 91 (1.360) | coding (1285/1686 nt) | PP_2213 | acyl‑CoA synthetase | |||||
| * | ? | NC_002947 | 2310524 = | 67 (0.930) | 4 (0.060) | 4/262 | 7.9 | 6.0% | coding (275/1311 nt) | PP_2033 | hypothetical protein |
| ? | NC_002947 | 2310581 = | 62 (0.930) | coding (332/1311 nt) | PP_2033 | hypothetical protein | |||||
| * | ? | NC_002947 | 2037937 = | 67 (0.930) | 4 (0.060) | 4/260 | 7.9 | 6.5% | noncoding (80/89 nt) | PP_mr27 | C4 ncRNA |
| ? | NC_002947 | 2038014 = | 54 (0.810) | noncoding (3/89 nt) | PP_mr27 | C4 ncRNA | |||||
| * | ? | NC_002947 | 4263825 = | 58 (0.800) | 4 (0.060) | 4/266 | 8.0 | 7.1% | coding (118/1068 nt) | vanA | vanillate O‑demethylase oxygenase subunit |
| ? | NC_002947 | 4263912 = | 50 (0.740) | coding (205/1068 nt) | vanA | vanillate O‑demethylase oxygenase subunit | |||||
| * | ? | NC_002947 | 3654839 = | 86 (1.190) | 4 (0.060) | 4/268 | 8.0 | 4.7% | coding (1554/1620 nt) | PP_3220 | ABC transporter ATP‑binding protein |
| ? | NC_002947 | 3654873 = | 81 (1.180) | coding (1520/1620 nt) | PP_3220 | ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 5584055 = | 94 (1.300) | 4 (0.060) | 4/270 | 8.1 | 4.8% | coding (1677/2259 nt) | parC | DNA topoisomerase IV subunit A |
| ? | NC_002947 | 5584112 = | 70 (1.010) | coding (1620/2259 nt) | parC | DNA topoisomerase IV subunit A | |||||