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 |
| RA | 250,396 | A→G | 14.8% | pseudogene (325/756 nt) | lafU → | flagellar system protein, promoterless fragment |
| MC JC | 257,908 | Δ776 bp | 100% | insB9–[crl] | insB9, insA9, [crl] | |
| JC JC | 622,244 | IS5 (–) +4 bp | 55.2% | intergenic (‑55/‑53) | fepD ← / → entS | ferric enterobactin ABC transporter membrane subunit FebD/enterobactin exporter EntS |
| RA | 1,009,421 | C→T | 8.5% | H526H (CAC→CAT) | rlmL → | fused 23S rRNA m(2)G2445 methyltransferase and 23S rRNA m(7)G2069 methyltransferase |
| MC JC | 1,299,499 | Δ1,199 bp | 100% | insH21 | insH21 | |
| RA | 1,650,461 | C→A | 39.1% | pseudogene (384/921 nt) | ydfE → | Qin prophage; protein YdfE |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB‑5–insA‑5 | insB‑5, insA‑5 | |
| JC JC | 1,979,486 | IS5 (+) +4 bp | 100% | intergenic (‑271/‑264) | insA‑5 ← / → uspC | IS1 protein InsA/universal stress protein C |
| RA | 2,173,361 | Δ2 bp | 100% | pseudogene (917‑918/1358 nt) | gatC ← | galactitol‑specific PTS enzyme IIC component |
| JC JC | 2,629,042 | IS5 (+) +4 bp | 54.3% | intergenic (‑104/‑245) | pdeF ← / → yfgG | cyclic di‑GMP phosphodiesterase PdeF/protein YfgG |
| RA | 2,708,714 | C→A | 11.1% | S14I (AGC→ATC) | rseB ← | anti‑sigma factor stabilizing protein RseB |
| RA | 3,560,455:1 | +G | 100% | pseudogene (151/758 nt) | glpR ← | DNA‑binding transcriptional repressor GlpR |
| RA | 4,105,639 | C→A | 9.6% | R11L (CGA→CTA) | cpxR ← | DNA‑binding transcriptional dual regulator CpxR |
| RA | 4,296,060 | C→T | 54.3% | 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 |
| RA | 4,510,928 | A→T | 64.4% | L177Q (CTG→CAG) | fecE ← | ferric citrate ABC transporter ATP binding subunit |
| RA | 4,514,119 | C→T | 31.5% | D64N (GAT→AAT) | fecB ← | ferric citrate ABC transporter periplasmic binding protein |
| RA | 4,515,480 | C→T | 100% | G400S (GGC→AGC) | fecA ← | ferric citrate outer membrane transporter |
| RA | 4,554,433 | C→A | 10.2% | intergenic (+72/‑143) | uxuB → / → uxuR | D‑mannonate oxidoreductase/DNA‑binding transcriptional repressor UxuR |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 3423764–3424234 | 3424496–3424239 | 6–733 | 7 [6] | [6] 8 | [rrfD]–[rrlD] | [rrfD],[rrlD] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 621688 | 22 (0.710) | 5 (0.170) | 3/356 | NT | 17.0% | coding (502/1005 nt) | fepD | ferric enterobactin ABC transporter membrane subunit FebD |
| ? | NC_000913 | 623383 = | 28 (0.960) | coding (1084/1251 nt) | entS | enterobactin exporter EntS | |||||
| * | ? | NC_000913 | 1207790 = | 22 (0.710) | 19 (0.670) | 18/344 | NT | 49.3% | coding (290/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | 1209619 = | 19 (0.670) | pseudogene (37/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | = 1207805 | 22 (0.710) | 12 (0.420) | 11/344 | NT | 38.0% | coding (305/630 nt) | ycfK | e14 prophage; protein StfP |
| ? | NC_000913 | = 1209602 | 19 (0.670) | pseudogene (54/537 nt) | stfE | e14 prophage; putative side tail fiber protein fragment | |||||
| * | ? | NC_000913 | 2288919 = | NA (NA) | 5 (0.160) | 4/376 | NT | 12.2% | noncoding (1195/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 3922507 | 36 (1.160) | intergenic (‑67/+550) | atpI/rsmG | ATP synthase accessory factor/16S rRNA m(7)G527 methyltransferase | |||||
| * | ? | NC_000913 | = 4542690 | 21 (0.680) | 3 (0.100) | 3/358 | NT | 10.9% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 29 (0.980) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||