mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 501,455 | 0 | A | G | 26.1% | 34.2 / 11.0 | 23 | intergenic (+26/+107) | gsk/ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 501,462 | 0 | T | G | 24.0% | 40.1 / 13.8 | 25 | intergenic (+33/+100) | gsk/ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 501,469 | 0 | G | T | 24.0% | 48.1 / 10.8 | 25 | intergenic (+40/+93) | gsk/ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 501,470 | 0 | C | T | 24.0% | 39.5 / 11.4 | 25 | intergenic (+41/+92) | gsk/ybaL | inosine/guanosine kinase/inner membrane putative NAD(P)‑binding transporter |
| * | NC_000913 | 314,258 | 0 | G | A | 22.5% | 70.8 / 18.7 | 40 | intergenic (‑453/‑99) | ykgP/eaeH | pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified |
| * | NC_000913 | 314,255 | 0 | T | C | 21.9% | 79.1 / 18.2 | 41 | intergenic (‑450/‑102) | ykgP/eaeH | pseudogene, oxidoreductase family/pseudogene, attaching and effacing protein homology;factor; Not classified |
| Marginal new junction evidence (lowest skew 10 of 45 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3476573 = | 28 (0.830) | 6 (0.200) | 6/238 | 2.5 | 18.9% | intergenic (‑133/+34) | yheO/fkpA | putative PAS domain‑containing DNA‑binding transcriptional regulator/FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase) |
| ? | NC_000913 | 3476599 = | 26 (0.850) | intergenic (‑159/+8) | yheO/fkpA | putative PAS domain‑containing DNA‑binding transcriptional regulator/FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase) | |||||
| * | ? | NC_000913 | 3705896 = | 56 (1.650) | 6 (0.190) | 6/246 | 2.6 | 10.2% | intergenic (‑106/+202) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| ? | NC_000913 | 3705924 = | NA (NA) | intergenic (‑134/+174) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor | |||||
| * | ? | NC_000913 | = 2768010 | 28 (0.830) | 6 (0.190) | 6/248 | 2.6 | 16.8% | coding (301/864 nt) | yfjP | CP4‑57 prophage; 50S ribosome‑binding GTPase family protein |
| ? | NC_000913 | = 2768033 | 33 (1.030) | coding (324/864 nt) | yfjP | CP4‑57 prophage; 50S ribosome‑binding GTPase family protein | |||||
| * | ? | NC_000913 | = 1463456 | 23 (0.680) | 5 (0.160) | 5/240 | 2.8 | 19.6% | intergenic (+18/‑83) | paaK/paaX | phenylacetyl‑CoA ligase/transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer |
| ? | NC_000913 | = 1463468 | 20 (0.650) | intergenic (+30/‑71) | paaK/paaX | phenylacetyl‑CoA ligase/transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer | |||||
| * | ? | NC_000913 | = 2499276 | 28 (0.830) | 5 (0.160) | 5/246 | 2.9 | 15.1% | coding (606/1698 nt) | ypdA | sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system |
| ? | NC_000913 | = 2499293 | 30 (0.940) | coding (623/1698 nt) | ypdA | sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system | |||||
| * | ? | NC_000913 | = 4040683 | 56 (1.650) | 10 (0.300) | 5/258 | 3.0 | 16.5% | intergenic (+47/+223) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | NC_000913 | = 4213162 | 46 (1.380) | intergenic (+3/‑72) | rrfE/yjaA | 5S ribosomal RNA of rrnE operon/stress‑induced protein | |||||
| * | ? | NC_000913 | 2737618 = | 55 (1.630) | 4 (0.130) | 4/238 | 3.1 | 7.6% | coding (20/48 nt) | pheL | pheA gene leader peptide |
| ? | NC_000913 | 2737685 = | 47 (1.530) | intergenic (+39/‑60) | pheL/pheA | pheA gene leader peptide/chorismate mutase and prephenate dehydratase, P‑protein | |||||
| * | ? | NC_000913 | 4123060 = | 46 (1.360) | 4 (0.120) | 4/248 | 3.2 | 8.5% | coding (280/960 nt) | ftsN | essential cell division protein |
| ? | NC_000913 | 4123096 = | 43 (1.340) | coding (244/960 nt) | ftsN | essential cell division protein | |||||
| * | ? | NC_000913 | 3721998 = | 38 (1.120) | 4 (0.130) | 4/246 | 3.2 | 9.6% | noncoding (1366/1443 nt) | IS150 | repeat region |
| ? | NC_000913 | 3722033 = | 40 (1.260) | noncoding (1401/1443 nt) | IS150 | repeat region | |||||
| * | ? | NC_000913 | = 3558690 | 46 (1.360) | 4 (0.130) | 4/246 | 3.2 | 8.9% | coding (423/1599 nt) | rtcR | sigma 54‑dependent transcriptional regulator of rtcBA expression |
| ? | NC_000913 | = 3558719 | 39 (1.230) | coding (452/1599 nt) | rtcR | sigma 54‑dependent transcriptional regulator of rtcBA expression | |||||