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 | 93,173 | A→C | 100% | R587S (AGA→AGC) D3A (GAT→GCT) |
ftsI → murE → |
transpeptidase involved in septal peptidoglycan synthesis; penicillin‑binding protein 3 UDP‑N‑acetylmuramoyl‑L‑alanyl‑D‑glutamate:meso‑ diaminopimelate ligase |
| MC JC | 257,908 | Δ776 bp | 100% | [crl] | [crl] | |
| RA | 349,642 | A→G | 5.8% | intergenic (+70/‑370) | prpB → / → prpC | 2‑methylisocitrate lyase/2‑methylcitrate synthase |
| RA | 357,775 | A→T | 5.1% | intergenic (+321/+16) | codA → / ← cynR | cytosine/isoguanine deaminase/transcriptional activator of cyn operon; autorepressor |
| RA | 752,647 | T→C | 7.5% | D50G (GAT→GGT) | ybgD ← | putative fimbrial‑like adhesin protein |
| RA | 816,440 | G→T | 7.0% | L70M (CTG→ATG) | ybhK ← | putative CofD superfamily transferase |
| RA | 1,215,879 | G→A | 9.8% | G31R (GGG→AGG) | ycgZ → | RcsB connector protein for regulation of biofilm and acid‑resistance |
| RA | 1,413,542 | A→T | 100% | Y67N (TAT→AAT) | ydaC ← | DUF1187 family protein, Rac prophage; putative double‑strand break reduction protein |
| RA | 1,438,586 | C→T | 6.6% | G733G (GGG→GGA) | pfo ← | pyruvate‑flavodoxin oxidoreductase |
| 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 | 2,027,258 | G→A | 6.1% | L254L (CTG→TTG) | yedQ ← | putative membrane‑anchored diguanylate cyclase |
| RA | 2,093,040 | G→A | 100% | A215T (GCT→ACT) | hisC → | histidinol‑phosphate aminotransferase |
| RA | 2,305,011 | A→G | 7.4% | intergenic (+620/+95) | eco → / ← mqo | ecotin, a serine protease inhibitor/malate dehydrogenase, FAD/NAD(P)‑binding domain |
| RA | 2,352,618 | T→A | 8.1% | intergenic (‑246/‑27) | glpT ← / → glpA | sn‑glycerol‑3‑phosphate transporter/anaerobic sn‑glycerol‑3‑phosphate dehydrogenase, large FAD/NAD(P)‑binding subunit |
| RA | 2,427,541 | C→T | 8.7% | A83A (GCG→GCA) | argT ← | lysine/arginine/ornithine transporter subunit |
| RA | 2,555,060 | A→G | 6.4% | Y41H (TAT→CAT) | eutR ← | eut operon transcriptional activator, AraC family |
| RA | 3,214,658 | A→G | 16.3% | E538E (GAA→GAG) | rpoD → | RNA polymerase, sigma 70 (sigma D) factor |
| RA | 3,397,885 | A→G | 5.1% | N164N (AAT→AAC) | yhdE ← | dTTP/UTP pyrophosphatase; m(5)UTP/m(5)CTP/pseudo‑UTP pyrophosphatase |
| RA | 3,602,700 | T→C | 16.6% | Q16R (CAG→CGG) | ftsE ← | cell division ATP‑binding protein |
| RA | 3,608,695 | T→G | 15.0% | intergenic (+47/+55) | zntA → / ← tusA | zinc, cobalt and lead efflux system/mnm(5)‑s(2)U34‑tRNA 2‑thiolation sulfurtransferase |
| RA | 4,087,637 | G→A | 5.9% | E213K (GAA→AAA) | yiiG → | DUF3829 family lipoprotein |
| RA | 4,116,406 | C→T | 100% | M272I (ATG→ATA) | glpK ← | glycerol kinase |
| RA | 4,182,928 | A→T | 100% | E562V (GAA→GTA) | rpoB → | RNA polymerase, beta subunit |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_000913 | 227123–228864 | 228864 | 1–1742 | 16 [15] | [15] 16 | [rrlH]–[rrfH] | [rrlH],[rrfH] |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 30 (0.410) | 29 (0.450) | 24/244 | NT | 51.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 29 (0.450) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 32 (0.440) | 33 (0.510) | 24/244 | NT | 53.5% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 29 (0.450) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1299498 | 0 (0.000) | 50 (0.700) | 42/268 | 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 | |||||
| * | ? | NC_000913 | = 1572380 | 38 (0.520) | 4 (0.060) | 4/266 | NT | 10.0% | intergenic (‑335/+27) | gadB/pqqL | glutamate decarboxylase B, PLP‑dependent/putative periplasmic M16 family zinc metalloendopeptidase |
| ? | NC_000913 | = 1572395 | 35 (0.500) | intergenic (‑350/+12) | gadB/pqqL | glutamate decarboxylase B, PLP‑dependent/putative periplasmic M16 family zinc metalloendopeptidase | |||||
| * | ? | NC_000913 | = 4171802 | 96 (1.310) | 10 (0.140) | 3/272 | NT | 9.1% | intergenic (+47/‑254) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| ? | NC_000913 | = 4213161 | 105 (1.450) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||