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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 46.2% | 73.7 / 62.8 | 80 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 29,496 | 0 | T | A | 34.8% | 75.4 / 30.3 | 46 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 3,206,435 | 0 | C | T | 33.3% | 39.1 / 18.3 | 30 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,568,504 | 0 | T | G | 32.0% | 106.6 / 18.1 | 78 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 2,001,918 | 0 | A | C | 30.9% | 52.8 / 16.8 | 42 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,111,747 | 0 | G | T | 30.0% | 66.5 / 15.2 | 30 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 650,809 | 0 | T | G | 28.8% | 77.4 / 15.6 | 52 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 3,401,459 | 0 | T | C | 25.4% | 103.4 / 14.7 | 55 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 501,564 | 0 | A | C | 24.3% | 54.8 / 15.7 | 37 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 4,287,719 | 0 | T | A | 23.9% | 150.6 / 27.0 | 67 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 332,991 | 0 | G | T | 21.6% | 142.8 / 10.4 | 52 | L207F (TTG→TTT) | pdeL | DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL |
| * | NC_000913 | 1,577,123 | 0 | A | C | 21.3% | 112.9 / 13.7 | 61 | V166G (GTA→GGA) | yddB | putative TonB‑dependent receptor |
| * | NC_000913 | 2,326,450 | 0 | T | G | 21.2% | 54.7 / 10.4 | 33 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 51 (0.750) | 9 (0.140) | 8/258 | 4.2 | 15.2% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 53 (0.830) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1978494 | 0 (0.000) | 11 (0.160) | 8/276 | 4.4 | 100% | intergenic (‑297/+24) | flhD/insB‑5 | DNA‑binding transcriptional dual regulator FlhD/IS1 protein InsB |
| ? | NC_000913 | = 2290113 | NA (NA) | noncoding (1/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 1979452 | 58 (0.850) | 6 (0.090) | 6/276 | 5.1 | 9.4% | intergenic (‑237/‑301) | insA‑5/uspC | IS1 protein InsA/universal stress protein C |
| ? | NC_000913 | = 3584195 | NA (NA) | noncoding (768/768 nt) | IS1 | repeat region | |||||
| * | ? | NC_000913 | = 1050545 | NA (NA) | 6 (0.090) | 6/276 | 5.1 | 9.4% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 1979452 | 58 (0.850) | intergenic (‑237/‑301) | insA‑5/uspC | IS1 protein InsA/universal stress protein C | |||||
| * | ? | NC_000913 | 4542682 = | 58 (0.850) | 5 (0.080) | 5/258 | 5.2 | 8.5% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 53 (0.830) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 1979271 = | 0 (0.000) | 4 (0.060) | 4/276 | 5.9 | 100% | intergenic (‑56/‑482) | insA‑5/uspC | IS1 protein InsA/universal stress protein C |
| ? | NC_000913 | 2101745 = | NA (NA) | intergenic (‑1/+150) | wbbL/insH‑7 | interrupted rhamnosyltransferase WbbL/IS5 transposase and trans‑activator | |||||
| * | ? | NC_000913 | 279163 = | NA (NA) | 3 (0.040) | 3/276 | 6.4 | 4.9% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 1979452 | 58 (0.850) | intergenic (‑237/‑301) | insA‑5/uspC | IS1 protein InsA/universal stress protein C | |||||