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 44 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 993,917 | 0 | A | C | 68.8% | ‑1.9 / 12.1 | 16 | V43G (GTG→GGG) | ssuB | aliphatic sulfonate ABC transporter ATPase |
| * | NC_000913 | 1,079,468 | 0 | A | G | 66.7% | ‑1.3 / 13.1 | 18 | D55G (GAT→GGT) | putP | proline:sodium symporter |
| * | NC_000913 | 354,288 | 0 | T | G | 61.5% | 1.9 / 10.2 | 13 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NC_000913 | 366,526 | 0 | T | G | 59.3% | 26.6 / 36.9 | 27 | T329P (ACC→CCC) | lacI | lactose‑inducible lac operon transcriptional repressor |
| * | NC_000913 | 3,285,877 | 0 | C | G | 55.6% | 4.6 / 10.8 | 9 | P134A (CCG→GCG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | NC_000913 | 573,394 | 0 | A | C | 53.6% | 30.3 / 41.6 | 28 | L8F (TTA→TTC) | rusA | DLP12 prophage; endonuclease RUS |
| * | NC_000913 | 2,578,143 | 0 | A | C | 53.3% | 8.1 / 13.8 | 15 | L79V (TTA→GTA) | maeB | malic enzyme: putative oxidoreductase/phosphotransacetylase |
| * | NC_000913 | 1,982,529 | 0 | C | A | 53.1% | 29.0 / 54.3 | 32 | intergenic (‑142/+25) | otsB/araH | trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease |
| * | NC_000913 | 993,913 | 0 | G | C | 52.9% | 9.6 / 19.3 | 17 | G44G (GGC→GGG) | ssuB | aliphatic sulfonate ABC transporter ATPase |
| * | NC_000913 | 501,575 | 0 | A | C | 52.4% | 20.9 / 31.4 | 21 | V555G (GTG→GGG) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 2,603,342 | 0 | A | C | 52.4% | 13.6 / 66.7 | 42 | T509P (ACC→CCC) | hyfB | hydrogenase 4, membrane subunit |
| * | NC_000913 | 501,564 | 0 | A | C | 52.2% | 25.2 / 35.0 | 23 | *559E (TAA→GAA) | ybaL | inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 2,958,771 | 0 | A | T | 52.2% | 19.8 / 37.7 | 23 | D38E (GAT→GAA) | ptrA | protease III |
| * | NC_000913 | 3,443,277 | 0 | A | C | 52.2% | 58.7 / 77.1 | 46 | V274G (GTA→GGA) | secY | preprotein translocase membrane subunit |
| * | NC_000913 | 3,947,850 | 0 | C | T | 52.2% | 13.0 / 28.0 | 23 | E40K (GAA→AAA) | hdfR | flhDC operon transcriptional repressor |
| * | NC_000913 | 1,004,625 | 0 | T | G | 52.0% | 20.0 / 29.4 | 25 | L227V (TTG→GTG) | ycbF | putative periplasmic pilin chaperone |
| * | NC_000913 | 3,786,567 | 0 | T | G | 51.7% | 31.2 / 35.8 | 29 | G436G (GGT→GGG) | gpmM | phosphoglycero mutase III, cofactor‑independent |
| * | NC_000913 | 1,982,551 | 0 | G | A | 51.6% | 12.2 / 37.0 | 31 | intergenic (‑164/+3) | otsB/araH | trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease |
| * | NC_000913 | 1,982,523 | 0 | A | G | 50.0% | 26.1 / 11.4 | 32 | intergenic (‑136/+31) | otsB/araH | trehalose‑6‑phosphate phosphatase, biosynthetic/L‑arabinose ABC transporter permease |
| * | NC_000913 | 2,386,862 | 0 | G | A | 48.6% | 5.7 / 34.0 | 37 | intergenic (+31/‑72) | yfbL/yfbM | putative M28A family peptidase/DUF1877 family protein |
| Marginal new junction evidence (lowest skew 10 of 34 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1616905 | 705 (23.660) | 16 (0.580) | 11/278 | 0.9 | 2.3% | intergenic (+27/‑123) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible |
| ? | NC_000913 | = 1616917 | 710 (25.550) | intergenic (+39/‑111) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible | |||||
| * | ? | NC_000913 | 1616896 = | 705 (23.660) | 8 (0.290) | 7/278 | 1.6 | 1.2% | intergenic (+18/‑132) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible |
| ? | NC_000913 | 1616928 = | 710 (25.550) | intergenic (+50/‑100) | yneK/ydeA | uncharacterized protein/arabinose efflux transporter, arabinose‑inducible | |||||
| * | ? | NC_000913 | 4200145 = | 38 (1.280) | 5 (0.180) | 5/276 | 2.0 | 13.5% | intergenic (+51/‑136) | yjaG/hupA | DUF416 domain protein/HU, DNA‑binding transcriptional regulator, alpha subunit |
| ? | NC_000913 | 4200182 = | 29 (1.050) | intergenic (+88/‑99) | yjaG/hupA | DUF416 domain protein/HU, DNA‑binding transcriptional regulator, alpha subunit | |||||
| * | ? | NC_000913 | = 3303996 | 27 (0.910) | 5 (0.180) | 5/276 | 2.0 | 17.5% | coding (549/1008 nt) | yhbW | putative luciferase‑like monooxygenase |
| ? | NC_000913 | = 3304188 | 22 (0.800) | coding (741/1008 nt) | yhbW | putative luciferase‑like monooxygenase | |||||
| * | ? | NC_000913 | 2286126 = | 26 (0.870) | 5 (0.180) | 5/272 | 2.0 | 17.6% | coding (1751/1761 nt) | yejM | essential inner membrane DUF3413 domain‑containing protein; lipid A production and membrane permeability factor |
| ? | NC_000913 | 2286159 = | 23 (0.850) | intergenic (+23/‑52) | yejM/proL | essential inner membrane DUF3413 domain‑containing protein; lipid A production and membrane permeability factor/tRNA‑Pro | |||||
| * | ? | NC_000913 | 255386 = | 34 (1.140) | 7 (0.250) | 5/280 | 2.0 | 16.5% | coding (331/1458 nt) | pepD | aminoacyl‑histidine dipeptidase (peptidase D) |
| ? | NC_000913 | 255482 = | 39 (1.390) | coding (235/1458 nt) | pepD | aminoacyl‑histidine dipeptidase (peptidase D) | |||||
| * | ? | NC_000913 | = 3876768 | 37 (1.240) | 5 (0.180) | 5/282 | 2.1 | 12.2% | coding (185/813 nt) | yidA | sugar phosphate phosphatase |
| ? | NC_000913 | = 3876814 | 37 (1.310) | coding (139/813 nt) | yidA | sugar phosphate phosphatase | |||||
| * | ? | NC_000913 | = 1622333 | 710 (23.830) | 5 (0.180) | 5/282 | 2.1 | 0.69% | coding (1002/1188 nt) | ydeE | putative transporter |
| ? | NC_000913 | = 1622355 | 768 (27.240) | coding (1024/1188 nt) | ydeE | putative transporter | |||||
| * | ? | NC_000913 | 4409174 = | NA (NA) | 5 (0.190) | 4/268 | 2.2 | 12.8% | noncoding (22/98 nt) | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | NC_000913 | 4409235 = | 34 (1.270) | noncoding (83/98 nt) | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP331 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | |||||
| * | ? | NC_000913 | 4370205 = | 13 (0.440) | 4 (0.140) | 4/280 | 2.3 | 18.1% | coding (208/1257 nt) | yjeH | putative transporter |
| ? | NC_000913 | 4370316 = | 24 (0.860) | coding (97/1257 nt) | yjeH | putative transporter | |||||