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 92 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,852,305 | 0 | G | C | 73.3% | 71.1 / 32.1 | 45 | R450P (CGC→CCC) | relA | ATP:GTP 3'‑pyrophosphotransferase |
| * | NC_002947 | 4,741,283 | 0 | C | G | 66.7% | 21.9 / 17.9 | 21 | intergenic (+474/+278) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,286 | 0 | C | T | 66.7% | 19.4 / 13.6 | 21 | intergenic (+477/+275) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,277 | 0 | C | T | 61.9% | 12.6 / 12.7 | 21 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,280 | 0 | C | T | 61.9% | 12.7 / 14.8 | 21 | intergenic (+471/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,609,896 | 0 | G | A | 59.6% | 28.3 / 55.3 | 53 | R224C (CGT→TGT) | PP_4929 | LysR family transcriptional regulator |
| * | NC_002947 | 4,348,749 | 0 | A | G | 53.7% | ‑0.3 / 60.7 | 54 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 53.1% | 54.3 / 55.1 | 32 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 53.1% | 2.7 / 37.0 | 32 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 53.1% | 0.0 / 62.5 | 32 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 52.9% | 7.5 / 86.0 | 68 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,273 | 1 | . | C | 52.4% | 33.3 / 35.5 | 21 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 52.4% | ‑3.4 / 23.9 | 21 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 195,634 | 0 | C | T | 48.7% | 14.9 / 106.6 | 78 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,274 | 0 | A | C | 47.6% | 1.3 / 20.6 | 21 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 46.9% | 3.0 / 34.5 | 32 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 46.9% | 3.7 / 36.8 | 32 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 46.9% | 11.1 / 38.5 | 32 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,950 | 0 | C | T | 45.5% | 48.1 / 82.7 | 66 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 45.5% | 49.0 / 79.6 | 66 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 344 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 1799915 | 57 (1.300) | 12 (0.330) | 11/218 | 2.3 | 19.8% | intergenic (+43/‑144) | rnhB/dnaEA | ribonuclease HII/DNA polymerase III subunit alpha |
| ? | NC_002947 | = 1799957 | 50 (1.390) | intergenic (+85/‑102) | rnhB/dnaEA | ribonuclease HII/DNA polymerase III subunit alpha | |||||
| * | ? | NC_002947 | 1443111 = | 58 (1.330) | 11 (0.310) | 11/214 | 2.3 | 20.0% | intergenic (‑42/+134) | ghrB/PP_1262 | 2‑ketoaldonate reductase/hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator |
| ? | NC_002947 | 1443179 = | 41 (1.160) | intergenic (‑110/+66) | ghrB/PP_1262 | 2‑ketoaldonate reductase/hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 614300 | 43 (0.980) | 9 (0.270) | 9/202 | 2.6 | 18.2% | intergenic (‑116/+62) | dxs/ispA | 1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase |
| ? | NC_002947 | = 614316 | 48 (1.440) | intergenic (‑132/+46) | dxs/ispA | 1‑deoxyxylulose‑5‑phosphate synthase/farnesyl diphosphate synthase | |||||
| * | ? | NC_002947 | 867923 = | 66 (1.510) | 11 (0.280) | 10/238 | 2.8 | 15.9% | intergenic (+18/+159) | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase |
| ? | NC_002947 | 868013 = | 57 (1.450) | intergenic (+108/+69) | PP_0750/mqo‑I | hypothetical protein/malate:quinone oxidoreductase | |||||
| * | ? | NC_002947 | 5280943 = | 55 (1.260) | 9 (0.250) | 8/214 | 3.0 | 16.1% | intergenic (+28/+110) | trmA/pcaG | tRNA/tmRNA (uridine(54)‑C5)‑methyltransferase TrmA/protocatechuate 3,4‑dioxygenase subunit alpha |
| ? | NC_002947 | 5281029 = | 49 (1.380) | intergenic (+114/+24) | trmA/pcaG | tRNA/tmRNA (uridine(54)‑C5)‑methyltransferase TrmA/protocatechuate 3,4‑dioxygenase subunit alpha | |||||
| * | ? | NC_002947 | = 4861197 | 56 (1.280) | 10 (0.280) | 8/214 | 3.0 | 18.4% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 43 (1.210) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | 86750 = | 49 (1.120) | 12 (0.310) | 9/232 | 3.0 | 21.4% | intergenic (‑33/+112) | PP_0075/PP_0076 | choline sulfate transporter/choline betaine‑binding protein |
| ? | NC_002947 | 86841 = | 45 (1.170) | intergenic (‑124/+21) | PP_0075/PP_0076 | choline sulfate transporter/choline betaine‑binding protein | |||||
| * | ? | NC_002947 | 6060487 = | 36 (0.820) | 12 (0.310) | 9/236 | 3.1 | 23.7% | intergenic (+67/+114) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein |
| ? | NC_002947 | 6060574 = | 45 (1.150) | intergenic (+154/+27) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 4896443 | 50 (1.140) | 9 (0.240) | 8/222 | 3.1 | 16.2% | intergenic (+31/‑177) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | = 4896490 | 51 (1.390) | intergenic (+78/‑130) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | 90346 = | 88 (2.010) | 10 (0.250) | 9/240 | 3.1 | 11.6% | intergenic (+21/+101) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein |
| ? | NC_002947 | 90427 = | 72 (1.810) | intergenic (+102/+20) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein | |||||