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 | 127,540 | 1 | . | C | 69.2% | 57.9 / 26.8 | 26 | coding (1846/1893 nt) | aceF | pyruvate dehydrogenase, dihydrolipoyltransacetylase component E2 |
| * | NC_000913 | 4,296,060 | 0 | C | T | 36.7% | 47.8 / 45.5 | 49 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,388,285 | 0 | A | G | 21.6% | 65.9 / 16.5 | 37 | intergenic (+24/+20) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | NC_000913 | 1,388,283 | 0 | C | T | 20.5% | 78.2 / 15.6 | 39 | intergenic (+22/+22) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| * | NC_000913 | 1,388,284 | 0 | A | T | 20.5% | 81.1 / 17.3 | 39 | intergenic (+23/+21) | tyrR/tpx | aromatic amino acid biosynthesis and transport regulon transcriptional regulator; autorepressor; ATPase; phosphatase/lipid hydroperoxide peroxidase |
| Marginal new junction evidence (lowest skew 10 of 16 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4341795 | 47 (1.360) | 7 (0.230) | 5/230 | 3.1 | 15.1% | intergenic (‑167/‑116) | melR/melA | melibiose operon transcriptional regulator; autoregulator/alpha‑galactosidase, NAD(P)‑binding |
| ? | NC_000913 | = 4341815 | 38 (1.270) | intergenic (‑187/‑96) | melR/melA | melibiose operon transcriptional regulator; autoregulator/alpha‑galactosidase, NAD(P)‑binding | |||||
| * | ? | NC_000913 | 274635 = | NA (NA) | 6 (0.180) | 6/258 | 3.1 | NA | noncoding (515/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274654 = | NA (NA) | noncoding (496/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | 364964 = | 39 (1.130) | 5 (0.150) | 5/252 | 3.4 | 11.9% | coding (1342/3075 nt) | lacZ | beta‑D‑galactosidase |
| ? | NC_000913 | 365015 = | 37 (1.130) | coding (1291/3075 nt) | lacZ | beta‑D‑galactosidase | |||||
| * | ? | NC_000913 | = 2196341 | 31 (0.900) | 5 (0.140) | 5/266 | 3.6 | 13.5% | intergenic (+8/‑133) | metG/yehH | methionyl‑tRNA synthetase/DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function |
| ? | NC_000913 | = 2196367 | 33 (0.960) | intergenic (+34/‑107) | metG/yehH | methionyl‑tRNA synthetase/DUF4132 family pseudogene; defective yehI paralog; molybdate metabolism regulator, first fragment; molybdate metabolism regulator, second fragment 2; yehI' molR mutations have phenotypes and the N‑terminal molR fragment of yehI' may be expressed and may have retained or evolved MolR function | |||||
| * | ? | NC_000913 | = 4168341 | 23 (0.670) | 5 (0.160) | 4/246 | 3.7 | 23.1% | intergenic (+141/‑31) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913 | = 4168363 | 12 (0.380) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | 2729443 = | 17 (0.490) | 5 (0.160) | 4/246 | 3.7 | 20.9% | noncoding (2/76 nt) | gltW | tRNA‑Glu |
| ? | NC_000913 | = 4168331 | 22 (0.690) | intergenic (+131/‑41) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | 2263690 = | 26 (0.750) | 4 (0.130) | 4/246 | 3.7 | 16.3% | intergenic (‑195/‑173) | fruB/setB | fused fructose‑specific PTS enzymes: IIA component/HPr component/lactose/glucose efflux system |
| ? | NC_000913 | 2263723 = | 17 (0.530) | intergenic (‑228/‑140) | fruB/setB | fused fructose‑specific PTS enzymes: IIA component/HPr component/lactose/glucose efflux system | |||||
| * | ? | NC_000913 | 3169605 = | 29 (0.840) | 4 (0.120) | 4/254 | 3.8 | 12.2% | coding (72/393 nt) | ygiW | hydrogen peroxide and cadmium resistance periplasmic protein; stress‑induced OB‑fold protein |
| ? | NC_000913 | 3169644 = | 30 (0.910) | coding (33/393 nt) | ygiW | hydrogen peroxide and cadmium resistance periplasmic protein; stress‑induced OB‑fold protein | |||||
| * | ? | NC_000913 | = 2193107 | 33 (0.960) | 4 (0.120) | 4/256 | 3.8 | 12.2% | coding (1062/1110 nt) | mrp | antiporter inner membrane protein |
| ? | NC_000913 | = 2193136 | 26 (0.780) | coding (1033/1110 nt) | mrp | antiporter inner membrane protein | |||||
| * | ? | NC_000913 | 1320709 = | 32 (0.930) | 4 (0.120) | 4/256 | 3.8 | 11.0% | coding (676/1596 nt) | trpD | fused glutamine amidotransferase (component II) of anthranilate synthase/anthranilate phosphoribosyl transferase |
| ? | NC_000913 | 1320732 = | 34 (1.020) | coding (653/1596 nt) | trpD | fused glutamine amidotransferase (component II) of anthranilate synthase/anthranilate phosphoribosyl transferase | |||||