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 | 2,667,126 | 0 | A | C | 48.1% | 22.9 / 12.4 | 27 | Y241D (TAT→GAT) | hcaT | putative 3‑phenylpropionate transporter |
| * | NC_000913 | 3,206,435 | 0 | C | T | 44.4% | 16.9 / 30.9 | 36 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,604,344 | 0 | C | T | 35.0% | 55.7 / 18.6 | 40 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 888,014 | 0 | T | G | 33.3% | 63.8 / 10.6 | 39 | noncoding (44/81 nt) | rybB | small regulatory RNA RybB |
| * | NC_000913 | 3,206,444 | 0 | T | A | 32.4% | 46.9 / 12.7 | 35 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 2,001,918 | 0 | A | C | 28.8% | 114.3 / 14.0 | 52 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| * | NC_000913 | 4,568,512 | 0 | C | A | 28.6% | 85.8 / 16.3 | 35 | R3L (CGT→CTT) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 332,991 | 0 | G | T | 28.3% | 131.7 / 23.6 | 53 | L207F (TTG→TTT) | pdeL | DNA‑binding transcriptional activator/c‑di‑GMP phosphodiesterase PdeL |
| * | NC_000913 | 3,404,215 | 0 | T | G | 28.2% | 79.0 / 11.3 | 39 | G244G (GGT→GGG) | yhdH | acrylyl‑CoA reductase |
| * | NC_000913 | 4,296,060 | 0 | C | T | 24.0% | 92.9 / 26.8 | 50 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,577,123 | 0 | A | C | 22.1% | 160.8 / 12.2 | 68 | V166G (GTA→GGA) | yddB | putative TonB‑dependent receptor |
| * | NC_000913 | 1,428,700 | 0 | A | G | 21.9% | 248.8 / 66.1 | 119 | D9D (GAT→GAC) | insH‑5 | Rac prophage; IS5 transposase and trans‑activator |
| * | NC_000913 | 4,287,719 | 0 | T | A | 21.6% | 124.9 / 13.0 | 51 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| * | NC_000913 | 2,538,569 | 0 | A | G | 20.6% | 137.9 / 27.4 | 63 | intergenic (+86/+103) | yfeS/cysM | conserved protein YfeS/cysteine synthase B |
| * | NC_000913 | 379,921 | 1 | . | G | 20.5% | 90.8 / 30.8 | 39 | intergenic (‑40/+148) | frmR/yaiO | DNA‑binding transcriptional repressor FrmR/outer membrane protein YaiO |
| Marginal new junction evidence (lowest skew 10 of 30 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 608007 = | NA (NA) | 14 (0.300) | 9/222 | 3.0 | 18.7% | noncoding (1/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | 609352 = | 61 (1.310) | intergenic (+175/+107) | insL‑2/entD | IS186/IS421 transposase/phosphopantetheinyl transferase EntD | |||||
| * | ? | NC_000913 | 2518036 = | 54 (0.940) | 7 (0.170) +41 bp |
7/192 | 3.1 | 14.9% | intergenic (‑204/+5) | pdeA/alaX | putative c‑di‑GMP phosphodiesterase PdeA/tRNA‑Ala |
| ? | NC_000913 | 2521058 = | 60 (1.050) | noncoding (8/76 nt) | valX | tRNA‑Val | |||||
| * | ? | NC_000913 | 2518092 = | 56 (0.980) | 9 (0.180) | 9/238 | 3.2 | 15.0% | noncoding (25/76 nt) | alaX | tRNA‑Ala |
| ? | NC_000913 | 2521076 = | 53 (1.060) | noncoding (26/76 nt) | valX | tRNA‑Val | |||||
| * | ? | NC_000913 | 4373295 = | NA (NA) | 43 (0.810) | 9/254 | 3.4 | NA | noncoding (2/34 nt) | other | REP328b |
| ? | NC_000913 | 4374499 = | NA (NA) | noncoding (1/34 nt) | other | REP329a | |||||
| * | ? | NC_000913 | = 3592589 | NA (NA) | 9 (0.200) | 7/212 | 3.4 | NA | noncoding (25/34 nt) | other | REP258a |
| ? | NC_000913 | = 3598469 | NA (NA) | noncoding (28/34 nt) | other | REP259b | |||||
| * | ? | NC_000913 | = 375160 | NA (NA) | 16 (0.280) +T |
10/272 | 3.4 | NA | noncoding (28/34 nt) | other | REP31e |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 375124 = | NA (NA) | 9 (0.230) | 6/190 | 3.4 | NA | intergenic (+243/‑335) | mhpE/mhpT | 4‑hydroxy‑2‑oxovalerate aldolase/3‑hydroxyphenylpropionate/3‑ hydroxycinnamate:H(+) symporter |
| ? | NC_000913 | 377530 = | NA (NA) | intergenic (+219/+5) | yaiL/frmB | DUF2058 domain‑containing protein YaiL/S‑formylglutathione hydrolase FrmB | |||||
| * | ? | NC_000913 | = 375246 | NA (NA) | 10 (0.200) +GAACGCCTTATCCGGT |
8/242 | 3.5 | NA | noncoding (13/34 nt) | other | REP31g |
| ? | NC_000913 | = 377491 | NA (NA) | noncoding (32/34 nt) | other | REP32d | |||||
| * | ? | NC_000913 | 2518036 = | 54 (0.940) | 5 (0.120) +41 bp |
5/192 | 3.8 | 11.9% | intergenic (‑204/+5) | pdeA/alaX | putative c‑di‑GMP phosphodiesterase PdeA/tRNA‑Ala |
| ? | NC_000913 | 2521180 = | 52 (0.910) | noncoding (8/76 nt) | valY | tRNA‑Val | |||||
| * | ? | NC_000913 | 2518036 = | 54 (0.940) | 5 (0.120) +41 bp |
5/192 | 3.8 | 11.4% | intergenic (‑204/+5) | pdeA/alaX | putative c‑di‑GMP phosphodiesterase PdeA/tRNA‑Ala |
| ? | NC_000913 | 2520938 = | 57 (0.990) | noncoding (8/76 nt) | valU | tRNA‑Val | |||||