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 | 888,014 | 0 | T | G | 34.9% | 74.6 / 11.7 | 43 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 1,550,663 | 0 | A | C | 34.5% | 44.4 / 10.9 | 29 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 332,991 | 0 | G | T | 32.4% | 78.4 / 14.5 | 38 | L207F (TTG→TTT) | pdeL | DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL |
| * | NC_000913 | 646,747 | 0 | T | G | 30.0% | 48.0 / 18.9 | 30 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase |
| * | NC_000913 | 4,604,344 | 0 | C | T | 29.3% | 60.6 / 12.3 | 42 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 29,496 | 0 | T | A | 28.6% | 98.8 / 20.5 | 49 | intergenic (+301/‑155) | dapB/carA | 4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl phosphate synthetase subunit alpha |
| * | NC_000913 | 753,125 | 0 | T | A | 28.6% | 68.3 / 13.0 | 35 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,206,444 | 0 | T | A | 27.0% | 67.3 / 14.5 | 37 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 26.9% | 108.3 / 18.0 | 52 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 2,326,450 | 0 | T | G | 26.7% | 91.5 / 21.4 | 45 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 4,287,719 | 0 | T | A | 26.7% | 91.6 / 17.9 | 45 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 3,206,435 | 0 | C | T | 26.5% | 59.9 / 13.3 | 34 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 1,435,727 | 0 | G | A | 25.8% | 58.2 / 11.8 | 31 | intergenic (‑108/+33) | uspF/ompN | nucleotide binding filament protein/outer membrane porin N |
| 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 | 4542682 = | 56 (0.990) | 8 (0.150) | 8/258 | 4.1 | 13.5% | intergenic (+49/‑433) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | 4542996 = | 50 (0.950) | intergenic (+363/‑119) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 8 (0.150) | 4/260 | 5.7 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377329 = | NA (NA) | intergenic (+18/+206) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 3081804 | 48 (0.850) | 4 (0.070) | 4/272 | 5.9 | 7.3% | intergenic (‑169/‑109) | tktA/loiP | transketolase 1/metalloprotease LoiP |
| ? | NC_000913 | = 3082054 | 54 (0.970) | coding (142/759 nt) | loiP | metalloprotease LoiP | |||||
| * | ? | NC_000913 | = 3588435 | 50 (0.890) | 3 (0.060) | 3/252 | 6.1 | 5.7% | coding (746/1071 nt) | ugpC | sn‑glycerol 3‑phosphate ABC transporter ATP binding subunit |
| ? | NC_000913 | = 3589209 | 54 (1.050) | coding (819/846 nt) | ugpE | sn‑glycerol 3‑phosphate ABC transporter membrane subunit UgpE | |||||
| * | ? | NC_000913 | = 1306067 | 47 (0.830) | 4 (0.070) | 3/262 | 6.3 | 8.5% | coding (304/1005 nt) | oppF | murein tripeptide ABC transporter/oligopeptide ABC transporter ATP binding subunit OppF |
| ? | NC_000913 | = 1306142 | 42 (0.780) | coding (379/1005 nt) | oppF | murein tripeptide ABC transporter/oligopeptide ABC transporter ATP binding subunit OppF | |||||
| * | ? | NC_000913 | = 1063727 | 71 (1.260) | 3 (0.050) | 3/272 | 6.4 | 4.0% | coding (49/921 nt) | cbpA | curved DNA‑binding protein |
| ? | NC_000913 | 1063731 = | 73 (1.310) | coding (45/921 nt) | cbpA | curved DNA‑binding protein | |||||
| * | ? | NC_000913 | = 338893 | 53 (0.940) | 3 (0.050) | 3/268 | 6.4 | 5.7% | coding (569/1419 nt) | yahG | DUF1116 domain‑containing protein YahG |
| ? | NC_000913 | = 339000 | 48 (0.880) | coding (676/1419 nt) | yahG | DUF1116 domain‑containing protein YahG | |||||
| * | ? | NC_000913 | = 222973 | 79 (1.400) | 3 (0.050) | 3/268 | 6.4 | 4.8% | coding (141/576 nt) | gmhB | D‑glycero‑beta‑D‑manno‑heptose‑1,7‑bisphosphate 7‑phosphatase |
| ? | NC_000913 | = 2136424 | 43 (0.780) | coding (820/1140 nt) | wza | outer membrane polysaccharide export protein Wza | |||||