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 | 45.5% | 53.5 / 45.5 | 66 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,206,435 | 0 | C | T | 39.3% | 25.1 / 18.6 | 28 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,568,504 | 0 | T | G | 35.9% | 152.3 / 17.3 | 92 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 1,825,061 | 0 | G | A | 34.5% | 33.2 / 11.3 | 29 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 3,404,215 | 0 | T | G | 27.7% | 91.3 / 15.4 | 47 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 753,125 | 0 | T | A | 27.5% | 87.5 / 11.4 | 40 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 2,001,918 | 0 | A | C | 26.5% | 102.0 / 12.1 | 50 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 2,782,509 | 0 | A | C | 25.0% | 170.1 / 12.0 | 80 | V73G (GTA→GGA) | ypjA | adhesin‑like autotransporter YpjA |
| * | NC_000913 | 2,326,450 | 0 | T | G | 21.1% | 137.0 / 20.3 | 58 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| 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 | 4542682 = | 50 (0.780) | 8 (0.130) | 8/260 | 4.3 | 15.7% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 39 (0.650) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 608007 = | NA (NA) | 5 (0.100) | 4/226 | 5.3 | 9.8% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 46 (0.890) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 2817783 = | 79 (1.240) | 3 (0.050) | 3/238 | 6.0 | 4.7% | intergenic (‑280/+1) | yqaB/argQ | fructose‑1‑phosphatase/tRNA‑Arg |
| ? | NC_000913 | = 2817922 | 53 (0.970) | intergenic (‑62/+137) | argQ/argZ | tRNA‑Arg/tRNA‑Arg | |||||
| * | ? | NC_000913 | 1722616 = | 46 (0.720) | 3 (0.050) | 3/256 | 6.3 | 6.6% | coding (496/2013 nt) | ydhK | putative transporter YdhK |
| ? | NC_000913 | = 1722612 | 43 (0.730) | coding (492/2013 nt) | ydhK | putative transporter YdhK | |||||
| * | ? | NC_000913 | 1462089 = | 68 (1.060) | 4 (0.070) | 3/254 | 6.3 | 5.7% | coding (1197/1206 nt) | paaJ | beta‑ketoadipyl‑CoA thiolase |
| ? | NC_000913 | 1462223 = | 71 (1.220) | coding (99/1314 nt) | paaK | phenylacetate‑CoA ligase | |||||
| * | ? | NC_000913 | = 4349622 | 93 (1.460) | 4 (0.070) | 3/262 | 6.4 | 4.3% | coding (413/720 nt) | dcuR | DNA‑binding transcriptional activator DcuR |
| ? | NC_000913 | = 4349717 | 89 (1.480) | coding (318/720 nt) | dcuR | DNA‑binding transcriptional activator DcuR | |||||
| * | ? | NC_000913 | 3143933 = | 68 (1.060) | 3 (0.050) | 3/262 | 6.4 | 4.9% | coding (232/1179 nt) | hybB | hydrogenase 2 membrane subunit |
| ? | NC_000913 | 3144900 = | 52 (0.860) | coding (241/987 nt) | hybA | hydrogenase 2 iron‑sulfur protein | |||||
| * | ? | NC_000913 | 3388949 = | 50 (0.780) | 3 (0.050) | 3/274 | 6.6 | 5.9% | coding (178/933 nt) | aaeA | aromatic carboxylic acid efflux pump membrane fusion protein |
| ? | NC_000913 | 3389041 = | 47 (0.750) | coding (86/933 nt) | aaeA | aromatic carboxylic acid efflux pump membrane fusion protein | |||||
| * | ? | NC_000913 | 2072856 = | 59 (0.920) | 3 (0.050) | 3/276 | 6.6 | 4.3% | coding (1318/3120 nt) | flu | CP4‑44 prophage; self recognizing antigen 43 (Ag43) autotransporter |
| ? | NC_000913 | = 2075080 | 76 (1.200) | coding (302/1533 nt) | yeeR | CP4‑44 prophage; inner membrane protein YeeR | |||||
| * | ? | NC_000913 | 535412 = | 78 (1.220) | 4 (0.060) | 3/276 | 6.6 | 5.5% | coding (1497/1782 nt) | gcl | glyoxylate carboligase |
| ? | NC_000913 | 535573 = | 59 (0.930) | coding (1658/1782 nt) | gcl | glyoxylate carboligase | |||||