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 | 753,125 | 0 | T | A | 42.5% | 39.7 / 27.8 | 40 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 2,667,126 | 0 | A | C | 39.5% | 44.4 / 14.7 | 38 | Y241D (TAT→GAT) | hcaT | putative 3‑phenylpropionate transporter |
| * | NC_000913 | 4,568,504 | 0 | T | G | 38.2% | 88.2 / 13.4 | 56 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 4,111,747 | 0 | G | T | 35.3% | 64.3 / 21.1 | 34 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 3,206,435 | 0 | C | T | 32.1% | 36.9 / 14.6 | 28 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 374,972 | 0 | T | C | 27.4% | 83.2 / 42.7 | 62 | intergenic (+91/‑487) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| * | NC_000913 | 374,974 | 0 | A | G | 27.4% | 87.2 / 44.0 | 62 | intergenic (+93/‑485) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| * | NC_000913 | 2,326,450 | 0 | T | G | 27.3% | 61.7 / 14.5 | 33 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 2,001,918 | 0 | A | C | 27.1% | 95.3 / 14.2 | 48 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 374,986 | 0 | T | C | 26.2% | 88.4 / 40.7 | 61 | intergenic (+105/‑473) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| * | NC_000913 | 753,114 | 0 | G | T | 25.5% | 111.4 / 10.6 | 47 | intergenic (‑319/+71) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| Marginal new junction evidence (lowest skew 10 of 18 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4373295 = | NA (NA) | 18 (0.380) | 8/256 | 3.3 | NA | noncoding (2/34 nt) | other | REP328b |
| ? | NC_000913 | 4374499 = | NA (NA) | noncoding (1/34 nt) | other | REP329a | |||||
| * | ? | NC_000913 | = 375165 | NA (NA) | 9 (0.260) | 5/192 | 3.3 | NA | noncoding (33/34 nt) | other | REP31e |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 375082 = | NA (NA) | 38 (0.870) | 7/238 | 3.3 | NA | intergenic (+201/‑377) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377372 = | NA (NA) | noncoding (37/37 nt) | other | REP32a | |||||
| * | ? | NC_000913 | = 375064 | NA (NA) | 5 (0.140) | 5/192 | 3.3 | NA | noncoding (33/34 nt) | other | REP31c |
| ? | NC_000913 | = 377487 | NA (NA) | intergenic (+176/+48) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 1396044 = | NA (NA) | 9 (0.200) | 7/242 | 3.4 | 17.3% | noncoding (1/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1428795 = | 43 (0.970) | intergenic (‑69/‑1) | insH‑5/lomR | Rac prophage; IS5 transposase and trans‑activator/Rac prophage; protein LomR_1 | |||||
| * | ? | NC_000913 | 15387 = | NA (NA) | 5 (0.120) | 5/224 | 3.8 | 16.7% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 16732 = | 25 (0.610) | intergenic (+175/+19) | insL‑1/hokC | IS186/IS421 transposase/protein HokC | |||||
| * | ? | NC_000913 | 374922 = | NA (NA) | 8 (0.220) | 3/202 | 4.4 | NA | intergenic (+41/‑537) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377430 = | NA (NA) | intergenic (+119/+105) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | 3045988 = | 48 (0.950) | 6 (0.130) | 4/256 | 4.7 | 13.4% | intergenic (‑87/+180) | ygfF/gcvP | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/glycine decarboxylase |
| ? | NC_000913 | 3046089 = | 33 (0.700) | intergenic (‑188/+79) | ygfF/gcvP | putative NAD(P)‑binding oxidoreductase with NAD(P)‑binding Rossmann‑fold domain/glycine decarboxylase | |||||
| * | ? | NC_000913 | = 1772807 | 50 (0.990) | 4 (0.080) | 4/264 | 4.8 | 7.4% | coding (296/1266 nt) | ydiN | putative transporter YdiN |
| ? | NC_000913 | = 1772952 | 52 (1.080) | coding (441/1266 nt) | ydiN | putative transporter YdiN | |||||
| * | ? | NC_000913 | 377321 = | NA (NA) | 4 (0.080) | 4/268 | 4.8 | NA | intergenic (+10/+214) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB |
| ? | NC_000913 | = 508817 | NA (NA) | noncoding (2/34 nt) | other | REP48e | |||||