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 87 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,327,127 | 0 | C | T | 62.7% | 18.3 / 63.3 | 69 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,725 | 0 | A | G | 56.2% | 3.9 / 35.0 | 32 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 53.0% | 4.9 / 82.3 | 66 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 2,282,813 | 0 | T | G | 51.3% | ‑2.5 / 47.2 | 39 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,741,273 | 1 | . | C | 50.0% | 16.3 / 24.4 | 14 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,274 | 0 | A | C | 50.0% | ‑5.8 / 14.6 | 14 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 50.0% | ‑4.0 / 13.0 | 14 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 50.0% | 19.3 / 22.5 | 14 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 50.0% | ‑3.1 / 12.0 | 14 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 50.0% | ‑0.8 / 13.6 | 14 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 50.0% | 15.6 / 25.3 | 14 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 322,135 | 0 | G | A | 46.2% | 1.2 / 46.0 | 40 | intergenic (+420/+38) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 4,741,299 | 0 | C | T | 42.9% | ‑0.1 / 10.5 | 14 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 42.9% | ‑2.7 / 13.7 | 14 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 322,142 | 0 | T | C | 42.5% | 13.3 / 39.8 | 40 | intergenic (+427/+31) | aguA/PP_0267 | agmatine deiminase/ferric siderophore receptor |
| * | NC_002947 | 2,282,822 | 0 | C | A | 42.4% | 23.9 / 30.4 | 33 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 40.6% | 26.9 / 37.9 | 32 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,817 | 0 | G | C | 38.7% | 28.4 / 34.5 | 32 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 1,070,265 | 0 | G | C | 37.8% | 38.2 / 32.1 | 37 | intergenic (+62/+82) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| * | NC_002947 | 1,070,268 | 0 | G | C | 37.8% | 26.5 / 37.0 | 37 | intergenic (+65/+79) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| Marginal new junction evidence (lowest skew 10 of 337 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 1119638 = | 44 (1.200) | 9 (0.250) | 9/264 | 2.6 | 17.4% | coding (626/1494 nt) | pepA | cytosol aminopeptidase |
| ? | NC_002947 | 1119667 = | 43 (1.210) | coding (597/1494 nt) | pepA | cytosol aminopeptidase | |||||
| * | ? | NC_002947 | 235331 = | 52 (1.420) | 9 (0.280) | 8/240 | 2.6 | 19.0% | intergenic (+28/+97) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase |
| ? | NC_002947 | 235390 = | 31 (0.960) | intergenic (+87/+38) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase | |||||
| * | ? | NC_002947 | = 5698799 | 53 (1.450) | 7 (0.220) | 7/238 | 2.8 | 13.4% | intergenic (+33/‑134) | hslU/PP_5002 | protease HslVU ATPase subunit/hypothetical protein |
| ? | NC_002947 | = 5698848 | 44 (1.370) | intergenic (+82/‑85) | hslU/PP_5002 | protease HslVU ATPase subunit/hypothetical protein | |||||
| * | ? | NC_002947 | 295670 = | 70 (1.910) | 9 (0.260) | 8/260 | 2.8 | 12.0% | intergenic (+17/+125) | PP_0241/PP_0242 | transporter/TetR family transcriptional regulator |
| ? | NC_002947 | 295789 = | 65 (1.860) | intergenic (+136/+6) | PP_0241/PP_0242 | transporter/TetR family transcriptional regulator | |||||
| * | ? | NC_002947 | 5125135 = | 41 (1.120) | 6 (0.200) | 6/220 | 2.9 | 14.1% | intergenic (+61/‑121) | PP_4511/PP_4512 | AraC family transcriptional regulator/DMT superfamily permease |
| ? | NC_002947 | 5125214 = | 40 (1.350) | intergenic (+140/‑42) | PP_4511/PP_4512 | AraC family transcriptional regulator/DMT superfamily permease | |||||
| * | ? | NC_002947 | 1037774 = | 43 (1.170) | 6 (0.200) | 6/226 | 3.0 | 14.7% | intergenic (+16/+100) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase |
| ? | NC_002947 | 1037852 = | 34 (1.120) | intergenic (+94/+22) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase | |||||
| * | ? | NC_002947 | = 6145578 | 43 (1.170) | 7 (0.200) | 7/262 | 3.1 | 14.2% | coding (190/276 nt) | PP_5390 | hypothetical protein |
| ? | NC_002947 | = 6145603 | 43 (1.220) | coding (165/276 nt) | PP_5390 | hypothetical protein | |||||
| * | ? | NC_002947 | = 5816927 | 41 (1.120) | 7 (0.220) | 6/236 | 3.1 | 18.1% | intergenic (+57/+72) | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| ? | NC_002947 | = 5816954 | 28 (0.880) | intergenic (+84/+45) | PP_5092/pilT | NLP/P60 protein/twitching motility protein | |||||
| * | ? | NC_002947 | 5105810 = | 47 (1.280) | 8 (0.230) | 7/262 | 3.1 | 16.0% | coding (2350/3021 nt) | ydiJ | putative oxidoreductase |
| ? | NC_002947 | 5105836 = | 39 (1.100) | coding (2324/3021 nt) | ydiJ | putative oxidoreductase | |||||
| * | ? | NC_002947 | 2765252 = | 26 (0.710) | 8 (0.230) | 7/260 | 3.1 | 23.9% | noncoding (15/199 nt) | PP_mr33 | Cobalamin regulatory region |
| ? | NC_002947 | 2765283 = | 26 (0.740) | intergenic (‑17/+15) | PP_mr33/PP_2419 | Cobalamin regulatory region/membrane protein | |||||