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 |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| MC JC | 257,908 | Δ776 bp | 100% | insB9–[crl] | insB9, insA9, [crl] | |
| MC JC | 1,397,381 | Δ13,756 bp | 100% | [ynaJ]–[ttcA] | 16 genes [ynaJ], uspE, fnr, ogt, abgT, abgB, abgA, abgR, mcaS, smrA, dgcM, zntB, fnrS, ynaL, dbpA, [ttcA] |
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| MC JC | 1,978,503 | Δ776 bp | 100% | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (917‑918/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| RA | 2,731,330 | G→A | 9.1% | intergenic (‑173/+270) | rrsG ← / ← clpB | 16S ribosomal RNA/ClpB chaperone |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| JC JC | 3,899,395 | IS1 (–) +9 bp | 100% | intergenic (‑2/+5) | yieK ← / ← yieL | putative glucosamine‑6‑phosphate deaminase YieK/putative hydrolase YieL |
| RA | 4,296,060 | C→T | 35.3% | intergenic (+266/+376) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| RA | 4,296,380:1 | +CG | 100% | intergenic (+586/+56) | gltP → / ← yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| JC JC | 4,457,932 | IS5 (–) +4 bp | 5.6% | intergenic (‑67/‑24) | yjgA ← / → pmbA | DUF615 domain‑containing protein YjgA/metalloprotease PmbA |
| JC JC | 4,542,161 | IS5 (–) +4 bp | 16.0% | coding (125‑128/597 nt) | fimE → | regulator for fimA |
| JC JC | 4,542,308 | IS5 (–) +4 bp | 7.8% | coding (272‑275/597 nt) | fimE → | regulator for fimA |
| JC JC | 4,542,511 | IS1 (+) +9 bp | 5.9% | coding (475‑483/597 nt) | fimE → | regulator for fimA |
| JC JC | 4,542,560 | IS1 (+) +9 bp | 35.5% | coding (524‑532/597 nt) | fimE → | regulator for fimA |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423707–3424596 | 3424596 | 1–890 | 55 [51] | [52] 55 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 807339 | 1 (0.010) | 76 (0.860) | 61/176 | NT | 96.2% | intergenic (‑58/+94) | ybhC/ybhB | outer membrane lipoprotein YhbC/putative kinase inhibitor |
| ? | NC_000913 | 4171877 = | 5 (0.060) | intergenic (+121/‑180) | rrfB/murB | 5S ribosomal RNA/UDP‑N‑acetylenolpyruvoylglucosamine reductase | |||||
| * | ? | NC_000913 | 1207790 = | 35 (0.390) | 43 (0.590) | 35/144 | NT | 59.9% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 29 (0.400) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 32 (0.360) | 43 (0.590) | 39/144 | NT | 60.9% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 29 (0.400) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 92 (1.090) | 68/168 | NT | 100% | intergenic (+253/‑33) | ychE/insH21 | putative inner membrane protein/IS5 transposase and trans‑activator |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+151/‑484) | insH21/oppA | IS5 transposase and trans‑activator/oligopeptide ABC transporter periplasmic binding protein | |||||
| * | ? | NC_000913 | 1978503 = | NA (NA) | 6 (0.070) | 6/176 | NT | 6.7% | noncoding (768/768 nt) | IS1 | repeat region |
| ? | NC_000913 | = 4542245 | 84 (0.950) | coding (209/597 nt) | fimE | regulator for fimA | |||||
| * | ? | NC_000913 | 3583428 = | NA (NA) | 5 (0.060) | 5/176 | NT | 5.0% | noncoding (1/768 nt) | IS1 | repeat region |
| ? | NC_000913 | 4542457 = | 95 (1.070) | coding (421/597 nt) | fimE | regulator for fimA | |||||
| * | ? | NC_000913 | 4542682 = | 25 (0.280) | 63 (0.790) | 50/158 | NT | 73.5% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 23 (0.290) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | = 4542690 | 26 (0.290) | 83 (1.040) | 59/158 | NT | 78.2% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 23 (0.290) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||