mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 502 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009974 | 5,105,258 | 0 | C | G | 78.8% | ‑0.3 / 14.3 | 33 | S198S (TCG→TCC) | RPPX_22650 | benzene 1,2‑dioxygenase |
| * | CP009974 | 5,105,300 | 0 | A | G | 76.5% | ‑4.2 / 17.3 | 34 | D184D (GAT→GAC) | RPPX_22650 | benzene 1,2‑dioxygenase |
| * | CP009974 | 2,738,417 | 0 | A | G | 76.0% | ‑3.6 / 11.2 | 25 | E210E (GAA→GAG) | RPPX_12165 | benzene 1,2‑dioxygenase |
| * | CP009974 | 5,105,264 | 0 | G | A | 75.0% | ‑2.1 / 13.6 | 28 | A196A (GCC→GCT) | RPPX_22650 | benzene 1,2‑dioxygenase |
| * | CP009974 | 5,105,267 | 0 | A | T | 75.0% | ‑2.0 / 13.6 | 28 | G195G (GGT→GGA) | RPPX_22650 | benzene 1,2‑dioxygenase |
| * | CP009974 | 5,105,270 | 0 | G | A | 75.0% | ‑2.1 / 13.8 | 28 | R194R (CGC→CGT) | RPPX_22650 | benzene 1,2‑dioxygenase |
| * | CP009974 | 5,105,285 | 0 | G | A | 75.0% | ‑1.8 / 10.9 | 24 | G189G (GGC→GGT) | RPPX_22650 | benzene 1,2‑dioxygenase |
| * | CP009974 | 5,105,288 | 0 | T | G | 75.0% | ‑1.8 / 13.1 | 24 | E188D (GAA→GAC) | RPPX_22650 | benzene 1,2‑dioxygenase |
| * | CP009974 | 5,105,291 | 0 | A | C | 75.0% | ‑1.7 / 15.7 | 24 | P187P (CCT→CCG) | RPPX_22650 | benzene 1,2‑dioxygenase |
| * | CP009974 | 3,756,907 | 0 | G | C | 74.1% | 598.5 / 252.7 | 313 | L400V (CTC→GTC) | RPPX_16780 | phospho‑2‑dehydro‑3‑deoxyheptonate aldolase |
| * | CP009974 | 3,105,419 | 0 | G | A | 73.3% | 618.4 / 215.3 | 313 | intergenic (+140/+135) | RPPX_13820/mscL | ferredoxin‑NADP reductase/large‑conductance mechanosensitive channel |
| * | CP009974 | 1,158,290 | 0 | C | G | 72.2% | 557.4 / 240.4 | 306 | intergenic (+1813/‑13470) | RPPX_05120/RPPX_05130 | hypothetical protein/channel protein TolC |
| * | CP009974 | 1,158,292 | 0 | T | C | 72.1% | 497.6 / 235.0 | 315 | intergenic (+1815/‑13468) | RPPX_05120/RPPX_05130 | hypothetical protein/channel protein TolC |
| * | CP009974 | 1,897,591 | 0 | T | C | 71.9% | 3791.0 / inf | 3435 | intergenic (‑5369/‑3228) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein |
| * | CP009974 | 3,756,917 | 0 | G | A | 70.9% | 512.0 / 245.1 | 323 | T396T (ACC→ACT) | RPPX_16780 | phospho‑2‑dehydro‑3‑deoxyheptonate aldolase |
| * | CP009974 | 2,564,339 | 0 | G | C | 70.7% | 264.6 / 162.2 | 201 | intergenic (‑228/+98) | RPPX_11415/RPPX_11420 | chemotaxis protein/chemotaxis protein |
| * | CP009974 | 3,105,408 | 0 | A | G | 70.5% | 596.8 / 266.3 | 331 | intergenic (+129/+146) | RPPX_13820/mscL | ferredoxin‑NADP reductase/large‑conductance mechanosensitive channel |
| * | CP009974 | 3,148,563 | 0 | G | A | 70.0% | 237.8 / 147.9 | 194 | intergenic (+90/+122) | RPPX_14035/RPPX_14040 | membrane protein/bifunctional glyoxylate/hydroxypyruvate reductase B |
| * | CP009974 | 1,896,433 | 0 | A | G | 69.8% | 431.9 / inf | 548 | intergenic (‑4211/‑4386) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein |
| * | CP009974 | 1,897,471 | 0 | G | C | 69.7% | 2811.8 / inf | 3563 | intergenic (‑5249/‑3348) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 620 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009974 | 1895750 = | 211 (0.800) | 336 (1.420) +GCCGGTCAGCACGTC |
153/270 | 0.1 | 17.5% | intergenic (‑3528/‑5069) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein |
| ? | CP009974 | 1897573 = | 3305 (12.570) | intergenic (‑5351/‑3246) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein | |||||
| * | ? | CP009974 | 1896077 = | 2578 (9.800) | 482 (2.050) +CGCGAAAGTGGATGTC |
105/268 | 3.0 | 28.5% | intergenic (‑3855/‑4742) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein |
| ? | CP009974 | = 1898007 | 134 (0.510) | intergenic (‑5785/‑2812) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein | |||||
| * | ? | CP009974 | 1490002 = | 315 (1.200) | 253 (0.970) +C |
117/298 | 3.1 | 43.4% | intergenic (+17/‑331) | RPPX_06570/RPPX_06575 | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase/TonB‑dependent receptor |
| ? | CP009974 | = 1490278 | 349 (1.330) | intergenic (+293/‑55) | RPPX_06570/RPPX_06575 | 1‑deoxy‑D‑xylulose‑5‑phosphate synthase/TonB‑dependent receptor | |||||
| * | ? | CP009974 | 3148550 = | 178 (0.680) | 57 (0.620) +97 bp |
36/106 | 3.2 | 46.0% | intergenic (+77/+135) | RPPX_14035/RPPX_14040 | membrane protein/bifunctional glyoxylate/hydroxypyruvate reductase B |
| ? | CP009974 | = 3148596 | 205 (0.780) | intergenic (+123/+89) | RPPX_14035/RPPX_14040 | membrane protein/bifunctional glyoxylate/hydroxypyruvate reductase B | |||||
| * | ? | CP009974 | 418657 = | 0 (0.000) | 107 (0.570) +AAGAAGC |
79/214 | 3.5 | 97.0% | intergenic (‑236/+415) | RPPX_01715/RPPX_01720 | hypothetical protein/lipoprotein |
| ? | CP009974 | = 4147133 | 7 (0.040) | intergenic (+385/‑636) | RPPX_18425/RPPX_18430 | enoyl‑CoA hydratase/conjugal transfer protein TraR | |||||
| * | ? | CP009974 | 3148569 = | 172 (0.650) | 87 (0.610) +68 bp |
58/164 | 3.6 | 47.5% | intergenic (+96/+116) | RPPX_14035/RPPX_14040 | membrane protein/bifunctional glyoxylate/hydroxypyruvate reductase B |
| ? | CP009974 | = 3148596 | 182 (0.690) | intergenic (+123/+89) | RPPX_14035/RPPX_14040 | membrane protein/bifunctional glyoxylate/hydroxypyruvate reductase B | |||||
| * | ? | CP009974 | 2287857 = | 113 (0.430) | 112 (0.640) | 69/200 | 4.2 | 71.8% | intergenic (‑437/+256) | RPPX_10255/RPPX_10260 | hypothetical protein/potassium transporter KefB |
| ? | CP009974 | 2288067 = | 13 (0.070) | intergenic (‑647/+46) | RPPX_10255/RPPX_10260 | hypothetical protein/potassium transporter KefB | |||||
| * | ? | CP009974 | 1277582 = | 269 (1.020) | 169 (0.650) +C |
106/298 | 4.5 | 39.9% | intergenic (+51/+187) | RPPX_05635/RPPX_05640 | aldehyde dehydrogenase/mechanosensitive ion channel protein MscS |
| ? | CP009974 | 4286484 = | 243 (0.920) | intergenic (+340/+304) | RPPX_19070/RPPX_19075 | LacI family transcriptional regulator/hypothetical protein | |||||
| * | ? | CP009974 | 1897055 = | 14 (0.050) | 144 (0.670) +28 bp |
84/244 | 4.6 | 9.7% | intergenic (‑4833/‑3764) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein |
| ? | CP009974 | 1897574 = | 3296 (12.530) | intergenic (‑5352/‑3245) | RPPX_08470/RPPX_08480 | tryptophan synthase subunit beta/hypothetical protein | |||||
| * | ? | CP009974 | = 2287906 | 78 (0.300) | 104 (0.600) | 66/200 | 4.8 | 76.5% | intergenic (‑486/+207) | RPPX_10255/RPPX_10260 | hypothetical protein/potassium transporter KefB |
| ? | CP009974 | = 2288016 | 12 (0.070) | intergenic (‑596/+97) | RPPX_10255/RPPX_10260 | hypothetical protein/potassium transporter KefB | |||||