mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 46 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,151,759 | 0 | G | A | 52.1% | 56.1 / inf | 341 | E49K (GAA→AAA) | acpP | acyl carrier protein (ACP) |
| * | NC_000913 | 2,610,107 | 0 | G | A | 49.1% | 16.8 / inf | 390 | E541K (GAG→AAG) | hyfG | hydrogenase 4, subunit |
| * | NC_000913 | 4,186,425 | 0 | C | T | 48.7% | 31.7 / inf | 415 | P359L (CCA→CTA) | rpoC | RNA polymerase, beta prime subunit |
| * | NC_000913 | 3,473,612 | 0 | A | C | 46.5% | 37.9 / inf | 406 | L157* (TTA→TGA) | rpsG | 30S ribosomal subunit protein S7 |
| * | NC_000913 | 1,907,327 | 0 | G | A | 46.3% | 89.9 / inf | 341 | Q37* (CAG→TAG) | cspC | stress protein, member of the CspA‑family |
| * | NC_000913 | 4,187,667 | 0 | T | A | 43.0% | 212.1 / inf | 377 | F773Y (TTC→TAC) | rpoC | RNA polymerase, beta prime subunit |
| * | NC_000913 | 363,400 | 0 | A | . | 42.6% | 706.0 / inf | 325 | coding (2906/3075 nt) | lacZ | beta‑D‑galactosidase |
| * | NC_000913 | 4,213,051 | 0 | A | C | 42.2% | 63.2 / 169.8 | 116 | noncoding (12/120 nt) | rrfE | 5S ribosomal RNA of rrnE operon |
| * | NC_000913 | 1,674,771 | 0 | G | . | 38.2% | 489.0 / inf | 213 | coding (859/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,770 | 0 | T | . | 38.0% | 469.8 / inf | 214 | coding (858/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,772 | 0 | G | . | 38.0% | 499.3 / inf | 213 | coding (860/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,773 | 0 | G | . | 38.0% | 500.7 / inf | 213 | coding (861/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,768 | 0 | C | . | 37.7% | 509.4 / inf | 215 | coding (856/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,769 | 0 | G | . | 37.7% | 504.9 / inf | 215 | coding (857/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,774 | 0 | C | . | 37.2% | 504.3 / inf | 215 | coding (862/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 2,947,591 | 0 | A | . | 35.8% | 157.7 / 90.8 | 67 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 1,674,766 | 0 | G | . | 35.1% | 568.5 / inf | 233 | coding (854/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,765 | 0 | G | . | 34.9% | 566.1 / inf | 233 | coding (853/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,767 | 0 | G | . | 34.8% | 571.4 / inf | 233 | coding (855/1035 nt) | tqsA | pheromone AI‑2 transporter |
| * | NC_000913 | 1,674,764 | 0 | G | . | 34.3% | 572.4 / inf | 233 | coding (852/1035 nt) | tqsA | pheromone AI‑2 transporter |
| Marginal new junction evidence (lowest skew 10 of 59 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 254 (0.670) | 132/300 | 3.4 | 52.2% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3393819 | 233 (0.610) | coding (2440/3801 nt) | yhdP | DUF3971‑AsmA2 domains protein | |||||
| * | ? | NC_000913 | = 1674768 | 134 (0.350) | 160 (0.440) | 126/288 | 3.5 | 55.3% | coding (856/1035 nt) | tqsA | pheromone AI‑2 transporter |
| ? | NC_000913 | 1674781 = | 130 (0.360) | coding (869/1035 nt) | tqsA | pheromone AI‑2 transporter | |||||
| * | ? | NC_000913 | = 1104115 | 154 (0.400) | 170 (0.450) | 122/298 | 4.3 | 51.7% | coding (165/456 nt) | csgB | curlin nucleator protein, minor subunit in curli complex |
| ? | NC_000913 | 1104420 = | 165 (0.440) | intergenic (+14/‑27) | csgB/csgA | curlin nucleator protein, minor subunit in curli complex/curlin subunit, amyloid curli fibers, cryptic | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 271 (0.720) | 114/298 | 5.2 | 55.3% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 2413641 | 219 (0.580) | coding (172/1203 nt) | ackA | acetate kinase A and propionate kinase 2 | |||||
| * | ? | NC_000913 | = 2290113 | NA (NA) | 237 (0.620) | 107/300 | 6.2 | 50.9% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 2413638 = | 229 (0.600) | coding (169/1203 nt) | ackA | acetate kinase A and propionate kinase 2 | |||||
| * | ? | NC_000913 | = 4542690 | 419 (1.100) | 81 (0.230) | 71/282 | 11.1 | 16.7% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542986 | 417 (1.160) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4542682 = | 419 (1.100) | 84 (0.230) | 69/282 | 11.5 | 17.0% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542996 = | 426 (1.190) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1287084 | 148 (0.390) | 84 (0.250) | 45/260 | 16.1 | 31.4% | intergenic (+558/+3) | narI/tpr | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/protamine‑like protein |
| ? | NC_000913 | 1287557 = | 239 (0.720) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | 780554 = | 428 (1.120) | 101 (0.270) +GAAG |
52/292 | 16.3 | 26.2% | noncoding (1/76 nt) | lysT | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 156 (0.410) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | NC_000913 | 781577 = | 258 (0.680) | 179 (0.480) +GAAG |
51/292 | 16.5 | 47.0% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | NC_000913 | = 2521006 | 156 (0.410) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||