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 | 4,568,504 | 0 | T | G | 33.5% | 364.6 / 30.3 | 182 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,604,344 | 0 | C | T | 30.6% | 251.7 / 82.4 | 160 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,111,747 | 0 | G | T | 29.3% | 169.0 / 49.2 | 75 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 445,558 | 0 | A | C | 28.4% | 139.8 / 18.4 | 67 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 4,032,731 | 0 | T | G | 27.1% | 178.0 / 21.6 | 86 | G80G (GGT→GGG) | yigZ | IMPACT family member YigZ |
| * | NC_000913 | 1,825,061 | 0 | G | A | 26.7% | 214.6 / 37.5 | 105 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 2,001,918 | 0 | A | C | 26.5% | 232.1 / 28.8 | 98 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,296,060 | 0 | C | T | 23.5% | 355.7 / 101.1 | 166 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,556,207 | 0 | T | C | 22.4% | 148.0 / 12.2 | 67 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 3,926,366 | 0 | A | C | 21.6% | 394.6 / 24.5 | 153 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 650,809 | 0 | T | G | 21.2% | 292.9 / 21.5 | 113 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 753,125 | 0 | T | A | 21.1% | 283.9 / 29.8 | 109 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| Marginal new junction evidence (lowest skew 10 of 11 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4542690 | 169 (0.970) | 6 (0.040) | 6/258 | 8.9 | 3.3% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 192 (1.170) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 381689 | NA (NA) | 4 (0.020) | 4/258 | 9.9 | NA | noncoding (430/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381743 | NA (NA) | noncoding (484/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 3620066 = | NA (NA) | 3 (0.020) | 3/248 | 10.3 | 100% | coding (875/4236 nt) | rhsB | rhs element protein RhsB |
| ? | NC_000913 | 3620490 = | 0 (0.000) | coding (1299/4236 nt) | rhsB | rhs element protein RhsB | |||||
| * | ? | NC_000913 | 1272758 = | 162 (0.930) | 3 (0.020) | 3/254 | 10.4 | 2.0% | coding (252/696 nt) | chaC | glutathione‑specific gamma‑glutamylcyclotransferase |
| ? | NC_000913 | 1273352 = | 148 (0.920) | coding (248/354 nt) | ychN | DsrE/F sulfur relay family protein YchN | |||||
| * | ? | NC_000913 | 381681 = | NA (NA) | 3 (0.020) | 3/258 | 10.5 | NA | noncoding (422/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381753 = | NA (NA) | noncoding (494/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 1310819 = | 280 (1.600) | 3 (0.020) | 3/264 | 10.6 | 1.5% | coding (47/297 nt) | yciI | protein YciI |
| ? | NC_000913 | 1602616 = | 129 (0.770) | coding (1127/1536 nt) | lsrA | Autoinducer‑2 ABC transporter ATP binding subunit | |||||
| * | ? | NC_000913 | 4302493 = | 155 (0.890) | 3 (0.020) | 3/266 | 10.7 | 2.0% | coding (586/2052 nt) | mdtO | putative multidrug efflux pump subunit MdtO |
| ? | NC_000913 | = 4302489 | 152 (0.900) | coding (590/2052 nt) | mdtO | putative multidrug efflux pump subunit MdtO | |||||
| * | ? | NC_000913 | = 1475285 | 302 (1.730) | 3 (0.020) | 3/270 | 10.7 | 1.0% | coding (142/2307 nt) | ydbD | DUF2773 domain‑containing protein YdbD |
| ? | NC_000913 | = 1475290 | 279 (1.630) | coding (147/2307 nt) | ydbD | DUF2773 domain‑containing protein YdbD | |||||
| * | ? | NC_000913 | = 387746 | 139 (0.790) | 5 (0.030) +GCT |
3/270 | 10.7 | 3.1% | coding (776/828 nt) | tauC | taurine ABC transporter membrane subunit |
| ? | NC_000913 | = 387972 | 182 (1.040) | coding (178/852 nt) | tauD | taurine dioxygenase | |||||
| * | ? | NC_000913 | = 2883773 | 195 (1.110) | 3 (0.020) | 3/272 | 10.8 | 1.6% | coding (366/1509 nt) | casA | type I‑E CRISPR system Cascade subunit CasA |
| ? | NC_000913 | = 2884034 | 179 (1.040) | coding (105/1509 nt) | casA | type I‑E CRISPR system Cascade subunit CasA | |||||