mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.27.1 revision 87c22d663cc3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 601 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,386,862 | 0 | G | A | 61.0% | 12.9 / 63.5 | 59 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 354,282 | 0 | T | G | 60.0% | 35.0 / 56.3 | 45 | V526G (GTT→GGT) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 357,890 | 0 | C | A | 58.6% | ‑3.4 / 25.3 | 29 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 2,332,823 | 0 | A | G | 58.3% | 15.9 / 50.2 | 48 | pseudogene (1580/4605 nt) | yfaS | pseudogene, bacterial alpha2‑macroglobulin YfaS variant family; putative membrane protein |
| * | NC_000913 | 3,133,302 | 0 | T | G | 55.7% | 42.9 / 84.5 | 61 | H219P (CAC→CCC) | yghS | putative ATP‑binding protein |
| * | NC_000913 | 3,556,207 | 0 | T | C | 55.4% | 14.0 / 75.9 | 56 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 3,665,702 | 0 | C | A | 54.4% | 27.9 / 103.9 | 79 | A37S (GCG→TCG) | gadX | acid resistance regulon transcriptional activator; autoactivator |
| * | NC_000913 | 2,386,868 | 0 | T | A | 53.4% | 31.8 / 86.2 | 60 | intergenic (+37/‑66) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| * | NC_000913 | 1,222,233 | 0 | G | A | 51.6% | 9.9 / 39.2 | 31 | pseudogene (60/75 nt) | ycgH | pseudogene; putative ATP‑binding component of a transport system |
| * | NC_000913 | 501,572 | 0 | A | C | 50.0% | 42.6 / 12.0 | 40 | V556G (GTG→GGG) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 4,604,344 | 0 | C | T | 48.9% | 39.1 / 63.4 | 88 | S62F (TCT→TTT) | bglJ | bgl operon transcriptional activator |
| * | NC_000913 | 29,496 | 0 | T | A | 47.8% | 43.0 / 30.4 | 46 | intergenic (+301/‑155) | dapB/carA | dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase |
| * | NC_000913 | 786,855 | 0 | A | C | 47.5% | 75.8 / 12.7 | 61 | G247G (GGT→GGG) | gpmA | phosphoglyceromutase 1 |
| * | NC_000913 | 3,443,277 | 0 | A | C | 47.4% | 52.7 / 38.2 | 57 | V274G (GTA→GGA) | secY | preprotein translocase membrane subunit |
| * | NC_000913 | 4,067,745 | 0 | A | G | 47.2% | 33.8 / 10.5 | 36 | L511P (CTG→CCG) | yihQ | putative sulpholipid alpha‑glucosidase; alpha‑glucosyl fluoride glucosidase |
| * | NC_000913 | 357,880 | 0 | T | C | 46.9% | 34.8 / 13.2 | 32 | K271E (AAA→GAA) | cynR | transcriptional activator of cyn operon; autorepressor |
| * | NC_000913 | 501,564 | 0 | A | C | 46.8% | 60.6 / 15.4 | 47 | *559E (TAA→GAA) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 3,640,981 | 0 | C | T | 46.7% | 47.6 / 37.6 | 60 | F40F (TTC→TTT) | dtpB | dipeptide and tripeptide permease B |
| * | NC_000913 | 2,615,733 | 0 | T | A | 46.4% | 52.7 / 32.7 | 57 | Y50F (TAT→TTT) | yfgO | putative UPF0118 family inner membrane permease |
| * | NC_000913 | 4,065,580 | 0 | T | A | 46.4% | 48.5 / 34.7 | 56 | T63S (ACC→TCC) | yihO | putative sulphoquinovose importer |
| Marginal new junction evidence (lowest skew 10 of 94 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 62 (0.930) | 14 (0.240) | 13/266 | 3.3 | 22.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 44 (0.740) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 761823 = | 57 (0.850) | 7 (0.110) | 7/276 | 5.4 | 12.2% | coding (302/1218 nt) | sucB | dihydrolipoyltranssuccinase |
| ? | NC_000913 | 761890 = | 48 (0.780) | coding (369/1218 nt) | sucB | dihydrolipoyltranssuccinase | |||||
| * | ? | NC_000913 | = 381689 | NA (NA) | 8 (0.130) | 7/280 | 5.5 | NA | noncoding (430/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 381743 | NA (NA) | noncoding (484/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 4200145 = | 85 (1.270) | 6 (0.100) | 6/276 | 5.9 | 7.2% | intergenic (+51/‑136) | yjaG/hupA | DUF416 domain protein/HU, DNA‑binding transcriptional regulator, alpha subunit |
| ? | NC_000913 | 4200182 = | 76 (1.230) | intergenic (+88/‑99) | yjaG/hupA | DUF416 domain protein/HU, DNA‑binding transcriptional regulator, alpha subunit | |||||
| * | ? | NC_000913 | = 3528142 | 56 (0.840) | 6 (0.100) | 6/278 | 5.9 | 10.2% | coding (1674/2136 nt) | yrfF | putative RcsCDB‑response attenuator, inner membrane protein |
| ? | NC_000913 | = 3528152 | 53 (0.850) | coding (1684/2136 nt) | yrfF | putative RcsCDB‑response attenuator, inner membrane protein | |||||
| * | ? | NC_000913 | = 1987441 | 48 (0.720) | 6 (0.100) | 6/278 | 5.9 | 11.9% | intergenic (+13/+66) | ftnB/yecJ | ferritin B, putative ferrous iron reservoir/DUF2766 family protein |
| ? | NC_000913 | = 1987450 | 44 (0.710) | intergenic (+22/+57) | ftnB/yecJ | ferritin B, putative ferrous iron reservoir/DUF2766 family protein | |||||
| * | ? | NC_000913 | = 1616905 | 54 (0.810) | 7 (0.110) | 6/278 | 5.9 | 12.3% | intergenic (+27/‑123) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible |
| ? | NC_000913 | = 1616917 | 49 (0.790) | intergenic (+39/‑111) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible | |||||
| * | ? | NC_000913 | 3619878 = | NA (NA) | 7 (0.110) | 6/280 | 6.0 | 100% | coding (687/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor |
| ? | NC_000913 | 3619892 = | 0 (0.000) | coding (701/4236 nt) | rhsB | Rhs protein with DUF4329 family putative toxin domain; putative neighboring cell growth inhibitor | |||||
| * | ? | NC_000913 | 228016 = | NA (NA) | 6 (0.090) | 6/284 | 6.0 | NA | noncoding (2258/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 228041 = | NA (NA) | noncoding (2283/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | 1840635 = | 40 (0.600) | 6 (0.090) | 6/286 | 6.1 | 12.4% | coding (1169/1308 nt) | ynjE | molybdopterin synthase sulfurtransferase |
| ? | NC_000913 | 1840666 = | 46 (0.720) | coding (1200/1308 nt) | ynjE | molybdopterin synthase sulfurtransferase | |||||