mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | ||||||
|---|---|---|---|---|---|---|
| evidence | position | mutation | freq | annotation | gene | description |
| RA | 42,119 | C→T | 8.3% | intergenic (‑188/‑284) | caiT ← / → fixA | putative transporter/anaerobic carnitine reduction putative electron transfer flavoprotein subunit |
| RA | 349,673 | G→C | 5.1% | intergenic (+101/‑339) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| RA | 349,740 | C→A | 5.0% | intergenic (+168/‑272) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| RA | 375,176 | A→G | 6.1% | intergenic (+295/‑283) | mhpE → / → mhpT | 4‑hyroxy‑2‑oxovalerate/4‑hydroxy‑2‑oxopentanoic acid aldolase, class I/3‑hydroxyphenylpropionic transporter |
| RA | 1,111,641 | C→T | 6.4% | A260V (GCT→GTT) | opgH → | OPG biosynthetic ACP‑dependent transmembrane UDP‑glucose beta‑1,2 glycosyltransferase; nutrient‑dependent cell size regulator, FtsZ assembly antagonist |
| RA | 1,286,965 | A→G | 11.4% | intergenic (+439/+101) | narI → / ← rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| RA | 1,334,390 | C→A | 11.1% | A179E (GCA→GAA) | cysB → | N‑acetylserine‑responsive cysteine regulon transcriptional activator; autorepressor |
| RA | 1,413,542 | A→T | 100% | Y67N (TAT→AAT) | ydaC ← | DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein |
| RA | 1,708,844 | C→G | 8.9% | A642A (GCC→GCG) | rsxC → | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| RA | 1,793,897 | Δ1 bp | 100% | coding (213/552 nt) | btuE ← | glutathione peroxidase |
| MC JC | 1,978,503 | Δ776 bp | 100% | insB1–insA | insB1, insA | |
| RA | 2,093,040 | G→A | 100% | A215T (GCT→ACT) | hisC → | histidinol‑phosphate aminotransferase |
| RA | 2,159,421 | A→T | 15.7% | I346F (ATT→TTT) | mdtC → | multidrug efflux system, subunit C |
| RA | 2,304,796 | T→C | 11.6% | intergenic (+405/+310) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,473,882 | T→G | 11.7% | L94R (CTG→CGG) | yfdP → | CPS‑53 (KpLE1) prophage; uncharacterized protein |
| RA | 2,537,741 | G→A | 9.9% | intergenic (+27/‑6) | yfeK → / → yfeS | uncharacterized protein/WGR domain protein |
| RA | 2,553,175 | T→A | 5.7% | F276I (TTC→ATC) | amiA → | N‑acetylmuramoyl‑l‑alanine amidase I |
| RA | 2,897,558 | G→A | 7.5% | A104V (GCC→GTC) | ygcS ← | putative MFS sugar transporter; membrane protein |
| RA | 3,577,084 | C→T | 7.0% | V170I (GTT→ATT) | gntK ← | gluconate kinase 2 |
| RA | 3,587,084 | T→A | 5.4% | I48N (ATC→AAC) | yhhA → | DUF2756 family protein |
| RA | 3,836,954 | G→A | 9.4% | M1M (ATG→ATA) † | setC → | putative arabinose efflux transporter |
| RA | 3,917,417 | C→A | 7.9% | G283V (GGG→GTG) | atpG ← | F1 sector of membrane‑bound ATP synthase, gamma subunit |
| RA | 3,935,065 | C→A | 5.6% | A430E (GCG→GAG) | rbsA → | D‑ribose ABC transporter ATPase |
| RA | 4,117,109 | T→G | 94.7% | Q38P (CAA→CCA) | glpK ← | glycerol kinase |
| RA | 4,187,597 | C→T | 100% | P750L (CCG→CTG) | rpoC → | RNA polymerase, beta prime subunit |
| RA | 4,578,192 | G→T | 5.6% | Q383K (CAA→AAA) | mcrB ← | 5‑methylcytosine‑specific restriction enzyme McrBC, subunit McrB |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 257907 | 0 (0.000) | 80 (0.830) | 61/260 | NT | 100% | intergenic (+8/‑769) | crl/crl | pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers/pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers |
| ? | NC_000913 | 258684 = | 0 (0.000) | pseudogene (9/331 nt) | crl | pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator;regulator; Surface structures; transcriptional regulator of cryptic csgA gene for curli surface fibers | |||||
| * | ? | NC_000913 | = 781688 | 89 (0.870) | 4 (0.060) | 4/168 | NT | 7.1% | intergenic (+36/‑397) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| ? | NC_000913 | 781845 = | 51 (0.820) | intergenic (+193/‑240) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||
| * | ? | NC_000913 | 1207790 = | 19 (0.190) | 57 (0.630) | 45/244 | NT | 77.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 17 (0.190) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 20 (0.200) | 57 (0.630) | 51/244 | NT | 76.7% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 17 (0.190) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 87 (0.880) | 70/268 | NT | 100% | intergenic (+253/‑1684) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein |
| ? | NC_000913 | 1300698 = | 0 (0.000) | intergenic (+1453/‑484) | ychE/oppA | UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein | |||||