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 | 1,825,061 | 0 | G | A | 37.8% | 55.4 / 25.6 | 45 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 4,604,344 | 0 | C | T | 37.1% | 87.3 / 38.8 | 70 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,206,435 | 0 | C | T | 34.2% | 48.9 / 28.1 | 41 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 30.2% | 99.3 / 20.8 | 53 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,223,593 | 0 | T | G | 24.3% | 170.0 / 10.1 | 75 | K12N (AAA→AAC) | iclR | DNA‑binding transcriptional repressor IclR |
| * | NC_000913 | 3,401,459 | 0 | T | C | 24.3% | 136.4 / 14.1 | 70 | D625G (GAT→GGT) | csrD | regulator of CsrB and CsrC decay |
| * | NC_000913 | 646,747 | 0 | T | G | 23.9% | 97.1 / 15.9 | 46 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 23.2% | 188.6 / 51.1 | 96 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 4,111,747 | 0 | G | T | 22.6% | 147.0 / 20.2 | 53 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 650,809 | 0 | T | G | 22.1% | 143.5 / 16.6 | 68 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 3,270,143 | 0 | C | T | 21.1% | 77.2 / 12.1 | 38 | intergenic (+541/+73) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| * | NC_000913 | 2,326,450 | 0 | T | G | 20.8% | 127.7 / 13.5 | 53 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 1,525,760 | 0 | G | A | 20.6% | 164.9 / 11.2 | 68 | S74L (TCG→TTG) | ansP | L‑asparagine transporter |
| Marginal new junction evidence (lowest skew 10 of 23 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 374963 | NA (NA) | 12 (0.210) | 9/190 | 4.4 | NA | noncoding (33/34 nt) | other | REP31a |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 1207805 | 89 (1.050) | 11 (0.150) | 10/244 | 5.4 | 15.4% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 42 (0.560) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 1207790 = | 91 (1.070) | 10 (0.130) | 9/244 | 5.8 | 13.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 43 (0.570) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 4542690 | 104 (1.230) | 7 (0.090) | 7/258 | 6.9 | 6.7% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 98 (1.240) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 4 (0.060) | 4/224 | 7.7 | 5.7% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 66 (0.960) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 9 (0.110) | 5/260 | 8.0 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 1879834 | 3 (0.040) | 5 (0.060) | 5/270 | 8.2 | 62.5% | coding (115/360 nt) | yeaR | DUF1971 domain‑containing protein YeaR |
| ? | NC_000913 | 2514274 = | NA (NA) | noncoding (2/1345 nt) | IS186 | repeat region | |||||
| * | ? | NC_000913 | = 359236 | 94 (1.110) | 4 (0.050) | 4/246 | 8.2 | 4.3% | coding (438/660 nt) | cynT | carbonic anhydrase 1 |
| ? | NC_000913 | = 359364 | 95 (1.260) | coding (566/660 nt) | cynT | carbonic anhydrase 1 | |||||
| * | ? | NC_000913 | = 3226189 | 75 (0.880) | 4 (0.050) | 4/250 | 8.3 | 4.8% | intergenic (+18/‑45) | ebgC/ygjI | DUF386 domain‑containing evolved beta‑D‑galactosidase subunit beta/putative transporter YgjI |
| ? | NC_000913 | = 3226285 | 91 (1.190) | coding (52/1434 nt) | ygjI | putative transporter YgjI | |||||
| * | ? | NC_000913 | 340035 = | NA (NA) | 8 (0.100) | 5/274 | 8.3 | NA | coding (243/297 nt) | yahH | putative uncharacterized protein YahH |
| ? | NC_000913 | 377322 = | NA (NA) | intergenic (+11/+213) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||