mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 | 4,604,344 | 0 | C | T | 43.9% | 52.6 / 49.4 | 66 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,410,658 | 0 | C | T | 41.4% | 59.9 / 100.9 | 87 | R36C (CGT→TGT) | yjfJ | putative transcriptional regulator effector protein |
| * | NC_000913 | 2,326,450 | 0 | T | G | 29.3% | 64.8 / 26.1 | 41 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 27.1% | 86.5 / 18.7 | 48 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,111,747 | 0 | G | T | 26.8% | 105.2 / 15.2 | 41 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 1,825,061 | 0 | G | A | 26.3% | 69.1 / 10.4 | 38 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 2,001,918 | 0 | A | C | 26.3% | 117.5 / 21.5 | 57 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 646,747 | 0 | T | G | 23.8% | 84.6 / 17.5 | 42 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 753,125 | 0 | T | A | 23.7% | 129.3 / 16.2 | 59 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 29,496 | 0 | T | A | 21.4% | 160.8 / 23.9 | 70 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 1,068,173 | 0 | T | G | 20.8% | 108.2 / 10.5 | 48 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 332,991 | 0 | G | T | 20.8% | 150.9 / 15.8 | 53 | L207F (TTG→TTT) | pdeL | DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL |
| * | NC_000913 | 4,101,514 | 0 | G | T | 20.4% | 155.3 / 12.8 | 54 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 340064 = | NA (NA) | 3 (0.050) | 3/214 | 6.4 | NA | coding (272/297 nt) | yahH | putative uncharacterized protein YahH |
| ? | NC_000913 | 411241 = | NA (NA) | noncoding (29/34 nt) | other | REP35d | |||||
| * | ? | NC_000913 | = 4373296 | NA (NA) | 4 (0.060) | 4/256 | 6.6 | NA | noncoding (1/34 nt) | other | REP328b |
| ? | NC_000913 | = 4374496 | NA (NA) | intergenic (‑262/+133) | yjeJ/epmB | protein YjeJ/lysine 2,3‑aminomutase | |||||
| * | ? | NC_000913 | = 3107980 | 85 (1.190) | 4 (0.060) | 4/260 | 6.7 | 5.4% | coding (1176/2136 nt) | speC | ornithine decarboxylase, biosynthetic |
| ? | NC_000913 | = 3108110 | 61 (0.910) | coding (1046/2136 nt) | speC | ornithine decarboxylase, biosynthetic | |||||
| * | ? | NC_000913 | = 3365362 | 159 (2.230) | 4 (0.060) | 4/266 | 6.8 | 2.5% | pseudogene (178/371 nt) | yhcE | putative uncharacterized protein YhcE |
| ? | NC_000913 | 3365368 = | 156 (2.270) | pseudogene (184/371 nt) | yhcE | putative uncharacterized protein YhcE | |||||
| * | ? | NC_000913 | = 899694 | NA (NA) | 3 (0.050) | 3/248 | 7.0 | NA | intergenic (+49/+150) | rlmC/artJ | 23S rRNA m(5)U747 methyltransferase/L‑arginine ABC transporter periplasmic binding protein |
| ? | NC_000913 | = 900783 | NA (NA) | noncoding (1/34 nt) | other | REP83a | |||||
| * | ? | NC_000913 | 1462089 = | 73 (1.020) | 3 (0.050) | 3/252 | 7.1 | 4.0% | coding (1197/1206 nt) | paaJ | beta‑ketoadipyl‑CoA thiolase |
| ? | NC_000913 | 1462223 = | 77 (1.180) | coding (99/1314 nt) | paaK | phenylacetate‑CoA ligase | |||||
| * | ? | NC_000913 | = 4027506 | NA (NA) | 4 (0.060) | 3/274 | 7.5 | NA | intergenic (+278/+103) | fre/fadA | flavin reductase/3‑ketoacyl‑CoA thiolase |
| ? | NC_000913 | = 4326144 | NA (NA) | intergenic (‑403/+255) | yjdN/yjdM | conserved protein YjdN/conserved protein YjdM | |||||
| * | ? | NC_000913 | 2728914 = | NA (NA) | 3 (0.040) | 3/274 | 7.5 | NA | noncoding (271/2904 nt) | rrlG | 23S ribosomal RNA |
| ? | NC_000913 | 2729041 = | NA (NA) | noncoding (144/2904 nt) | rrlG | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | 2189906 = | 49 (0.690) | 3 (0.040) | 3/274 | 7.5 | 5.0% | coding (1005/2481 nt) | yehB | putative fimbrial usher protein YehB |
| ? | NC_000913 | 2190004 = | 66 (0.930) | coding (907/2481 nt) | yehB | putative fimbrial usher protein YehB | |||||