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 | 4,296,060 | 0 | C | T | 37.1% | 78.2 / 97.8 | 90 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 2,947,591 | 0 | A | . | 28.0% | 65.5 / 22.2 | 25 | intergenic (+18/‑16) | metW/metV | tRNA‑Met/tRNA‑Met |
| * | NC_000913 | 422,429 | 0 | T | G | 26.3% | 151.4 / 14.6 | 76 | intergenic (+70/‑89) | proY/malZ | putative transporter ProY/maltodextrin glucosidase |
| * | NC_000913 | 3,269,956 | 0 | T | C | 21.6% | 107.4 / 25.4 | 54 | intergenic (+354/+260) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| 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 | 1207790 = | 67 (0.560) | 30 (0.280) | 29/260 | 5.2 | 28.8% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 89 (0.830) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 4542690 | 214 (1.780) | 20 (0.180) | 18/274 | 8.4 | 9.8% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 166 (1.470) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 1207805 | 60 (0.500) | 13 (0.120) | 12/260 | 10.2 | 15.6% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 87 (0.810) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 4542682 = | 214 (1.780) | 8 (0.070) | 8/274 | 12.5 | 4.2% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 168 (1.490) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 2560972 | 51 (0.420) | 4 (0.040) | 4/252 | 14.2 | 7.7% | intergenic (+74/‑396) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein YffL/CPZ‑55 prophage; uncharacterized protein YffM |
| ? | NC_000913 | 2561043 = | 52 (0.500) | intergenic (+145/‑325) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein YffL/CPZ‑55 prophage; uncharacterized protein YffM | |||||
| * | ? | NC_000913 | = 1209618 | 102 (0.850) | 4 (0.040) | 3/262 | 15.3 | 4.2% | pseudogene (38/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment |
| ? | NC_000913 | 2471897 = | 89 (0.820) | pseudogene (166/519 nt) | yfdL | CPS‑53 (KpLE1) prophage; putative uncharacterized protein YfdL | |||||
| * | ? | NC_000913 | = 3661217 | 122 (1.010) | 3 (0.030) | 3/290 | 16.2 | 2.4% | coding (804/3114 nt) | mdtF | multidrug efflux pump RND permease MdtF |
| ? | NC_000913 | 3911854 = | 126 (1.050) | coding (1815/1830 nt) | glmS | L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase | |||||