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 77 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 | 71.0% | 88.7 / 35.1 | 38 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 71.0% | 52.1 / 21.4 | 38 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 56.8% | 84.6 / 70.2 | 44 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 56.8% | 10.9 / 86.4 | 44 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 54.5% | 11.3 / 49.2 | 44 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 52.3% | ‑5.6 / 86.4 | 65 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 50.0% | 1.7 / 92.8 | 72 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,327,127 | 0 | C | T | 49.4% | 28.1 / 107.4 | 77 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 44.8% | 21.4 / 76.7 | 68 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 44.2% | 15.2 / 46.5 | 44 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 43.2% | 12.8 / 51.3 | 44 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 43.2% | 31.9 / 45.4 | 44 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,842,941 | 0 | C | . | 38.8% | 95.7 / 73.0 | 49 | intergenic (+40/‑257) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| * | NC_002947 | 322,142 | 0 | T | C | 36.6% | 54.9 / 64.2 | 71 | intergenic (+427/+31) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 322,135 | 0 | G | A | 36.1% | 59.5 / 63.8 | 72 | intergenic (+420/+38) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 5,655,682 | 0 | T | G | 35.1% | 78.8 / 74.5 | 74 | intergenic (‑86/+66) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,687 | 0 | C | A | 33.3% | 126.0 / 56.1 | 78 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,677 | 1 | . | A | 31.9% | 133.3 / 97.1 | 70 | intergenic (‑81/+71) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,988,961 | 0 | T | C | 31.8% | 141.7 / 60.4 | 85 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,559 | 0 | C | A | 31.5% | 89.3 / 38.6 | 54 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| Marginal new junction evidence (lowest skew 10 of 745 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4586100 | 41 (0.730) | 12 (0.310) | 10/180 | 3.1 | 33.0% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 20 (0.510) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 1639606 | 61 (1.090) | 16 (0.340) | 13/218 | 3.1 | 24.6% | intergenic (‑154/‑157) | czcR‑III/PP_1439 | response regulator/hypothetical protein |
| ? | NC_002947 | = 1639638 | 46 (0.970) | intergenic (‑186/‑125) | czcR‑III/PP_1439 | response regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 1487013 = | 44 (0.790) | 13 (0.300) | 11/196 | 3.1 | 29.6% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487103 = | 28 (0.650) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | 6027949 = | 52 (0.930) | 15 (0.320) | 12/214 | 3.2 | 25.5% | intergenic (‑37/+74) | PP_5277/kauB | MFS transporter/4‑guanidinobutyraldehyde dehydrogenase |
| ? | NC_002947 | 6028006 = | 44 (0.940) | intergenic (‑94/+17) | PP_5277/kauB | MFS transporter/4‑guanidinobutyraldehyde dehydrogenase | |||||
| * | ? | NC_002947 | 5914213 = | 51 (0.910) | 11 (0.250) | 11/200 | 3.2 | 25.0% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914309 = | 26 (0.600) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | = 4796648 | 45 (0.810) | 15 (0.320) | 12/212 | 3.2 | 31.2% | intergenic (‑161/+57) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| ? | NC_002947 | = 4796672 | 29 (0.630) | intergenic (‑185/+33) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase | |||||
| * | ? | NC_002947 | 2456877 = | 66 (1.180) | 14 (0.310) | 11/204 | 3.3 | 21.9% | intergenic (+85/‑96) | gapB/PP_2150 | glyceraldehyde‑3‑phosphate dehydrogenase/thiamine biosynthesis lipoprotein |
| ? | NC_002947 | 2456941 = | 47 (1.060) | intergenic (+149/‑32) | gapB/PP_2150 | glyceraldehyde‑3‑phosphate dehydrogenase/thiamine biosynthesis lipoprotein | |||||
| * | ? | NC_002947 | = 2078281 | 64 (1.150) | 13 (0.250) | 13/242 | 3.5 | 18.6% | intergenic (+23/+92) | PP_1853/PP_1854 | LysR family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 2078364 | 53 (1.000) | intergenic (+106/+9) | PP_1853/PP_1854 | LysR family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 5816910 = | 50 (0.890) | 12 (0.250) | 11/220 | 3.6 | 25.0% | intergenic (+40/+89) | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| ? | NC_002947 | 5816973 = | 29 (0.600) | intergenic (+103/+26) | PP_5092/pilT | NLP/P60 protein/twitching motility protein | |||||
| * | ? | NC_002947 | 5903816 = | 62 (1.110) | 16 (0.310) | 12/236 | 3.7 | 19.3% | intergenic (+16/+91) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease |
| ? | NC_002947 | 5903898 = | 77 (1.490) | intergenic (+98/+9) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease | |||||