mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 68 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,277 | 0 | C | T | 61.9% | 16.2 / 11.3 | 21 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 58.9% | 19.8 / 60.7 | 56 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,273 | 1 | . | C | 57.1% | 35.9 / 24.1 | 21 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 57.1% | 10.1 / 14.3 | 21 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 53.3% | ‑6.5 / 33.9 | 30 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 53.3% | ‑2.2 / 36.3 | 30 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 53.3% | 42.0 / 52.5 | 30 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 51.7% | ‑2.1 / 44.7 | 30 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 51.4% | 6.3 / 91.4 | 70 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,298 | 1 | . | T | 46.7% | 43.7 / 63.8 | 30 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 44.8% | ‑1.9 / 32.4 | 30 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,967 | 0 | A | . | 42.4% | 183.4 / 153.8 | 92 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,961 | 0 | T | C | 39.6% | 82.1 / 101.3 | 96 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 37.7% | 63.9 / 77.2 | 77 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 196,390 | 0 | T | C | 37.0% | 71.5 / 47.5 | 55 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,590 | 0 | T | C | 36.7% | 70.6 / 69.2 | 79 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,634 | 0 | C | T | 36.4% | 86.7 / 82.1 | 88 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,276 | 0 | C | G | 35.0% | 20.2 / 12.2 | 21 | intergenic (+467/+285) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,950 | 0 | C | T | 34.5% | 106.2 / 79.8 | 87 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 34.5% | 116.0 / 77.4 | 87 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 481 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 5506609 = | 82 (1.710) | 8 (0.210) | 10/210 | 2.7 | 12.9% | intergenic (+20/‑179) | PP_4839/cycA | iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease |
| ? | NC_002947 | 5506680 = | 44 (1.180) | intergenic (+91/‑108) | PP_4839/cycA | iron‑regulated membrane protein/D‑alanine/beta‑alanine/D‑serine/glycine permease | |||||
| * | ? | NC_002947 | 2668066 = | 70 (1.460) | 10 (0.270) | 10/208 | 2.7 | 20.0% | intergenic (+41/‑126) | prpF/prpD | aconitate isomerase/2‑methylcitrate dehydratase |
| ? | NC_002947 | 2668155 = | 26 (0.700) | intergenic (+130/‑37) | prpF/prpD | aconitate isomerase/2‑methylcitrate dehydratase | |||||
| * | ? | NC_002947 | 5382446 = | 29 (0.610) | 9 (0.260) | 8/198 | 3.0 | 30.8% | intergenic (+18/+115) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR |
| ? | NC_002947 | 5382544 = | 19 (0.540) | intergenic (+116/+17) | smpB/pdhR | SsrA‑binding protein/DNA‑binding transcriptional regulator LldR | |||||
| * | ? | NC_002947 | 235320 = | 60 (1.250) | 13 (0.290) | 11/248 | 3.0 | 17.8% | intergenic (+17/+108) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase |
| ? | NC_002947 | 235401 = | 65 (1.470) | intergenic (+98/+27) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase | |||||
| * | ? | NC_002947 | = 5513315 | 68 (1.420) | 9 (0.230) | 9/216 | 3.1 | 12.9% | intergenic (+45/‑109) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 5513371 | 67 (1.740) | intergenic (+101/‑53) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 2295818 = | 61 (1.280) | 10 (0.260) | 9/220 | 3.1 | 17.7% | intergenic (+21/+112) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein |
| ? | NC_002947 | 2295903 = | 43 (1.100) | intergenic (+106/+27) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein | |||||
| * | ? | NC_002947 | = 5870345 | 92 (1.920) | 8 (0.210) | 8/210 | 3.2 | 10.5% | intergenic (+50/+84) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator |
| ? | NC_002947 | = 5870380 | 65 (1.740) | intergenic (+85/+49) | PP_5144/ptsP | hypothetical protein/phosphoenolpyruvate‑dependent regulator | |||||
| * | ? | NC_002947 | 4896423 = | 55 (1.150) | 12 (0.300) | 9/226 | 3.2 | 19.1% | intergenic (+11/‑197) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | 4896512 = | 55 (1.370) | intergenic (+100/‑108) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | 741435 = | 86 (1.800) | 12 (0.260) | 11/256 | 3.2 | 12.8% | intergenic (+32/‑468) | PP_t12/PP_0635 | tRNA‑Thr/group II intron‑encoding maturase |
| ? | NC_002947 | 741486 = | NA (NA) | intergenic (+83/‑417) | PP_t12/PP_0635 | tRNA‑Thr/group II intron‑encoding maturase | |||||
| * | ? | NC_002947 | = 6002400 | 92 (1.920) | 10 (0.230) | 10/248 | 3.3 | 10.5% | intergenic (‑44/+102) | amaA/amaB | L‑pipecolate oxidase/L‑piperidine‑6‑carboxylate dehydrogenase |
| ? | NC_002947 | = 6002454 | 85 (1.920) | intergenic (‑98/+48) | amaA/amaB | L‑pipecolate oxidase/L‑piperidine‑6‑carboxylate dehydrogenase | |||||