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 | 4,296,060 | 0 | C | T | 24.0% | 38.9 / 10.0 | 25 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,171,852 | 0 | C | T | 22.2% | 66.1 / 15.4 | 36 | intergenic (+19/+27) | qseC/ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| * | NC_000913 | 3,171,857 | 0 | A | T | 22.2% | 70.7 / 16.4 | 36 | intergenic (+24/+22) | qseC/ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| * | NC_000913 | 3,171,858 | 0 | A | T | 22.2% | 65.6 / 17.8 | 36 | intergenic (+25/+21) | qseC/ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| * | NC_000913 | 3,171,863 | 0 | A | G | 21.1% | 66.4 / 15.6 | 38 | intergenic (+30/+16) | qseC/ygiZ | quorum sensing sensory histidine kinase in two‑component regulatory system with QseB/inner membrane protein |
| * | NC_000913 | 3,156,590 | 0 | C | A | 20.4% | 94.6 / 20.2 | 44 | intergenic (+72/‑33) | yqhD/dkgA | aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A |
| * | NC_000913 | 3,156,591 | 0 | T | G | 20.4% | 85.8 / 23.7 | 44 | intergenic (+73/‑32) | yqhD/dkgA | aldehyde reductase, NADPH‑dependent/2,5‑diketo‑D‑gluconate reductase A |
| Marginal new junction evidence (lowest skew 10 of 45 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4543438 | 36 (1.040) | 4 (0.120) | 4/252 | 3.9 | 12.4% | coding (324/549 nt) | fimA | major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4543474 | 23 (0.710) | coding (360/549 nt) | fimA | major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1061357 | 30 (0.860) | 4 (0.120) | 4/252 | 3.9 | 12.3% | coding (2102/2547 nt) | torA | trimethylamine N‑oxide (TMAO) reductase I, catalytic subunit |
| ? | NC_000913 | = 1061374 | 29 (0.890) | coding (2119/2547 nt) | torA | trimethylamine N‑oxide (TMAO) reductase I, catalytic subunit | |||||
| * | ? | NC_000913 | = 316201 | NA (NA) | 4 (0.120) | 4/252 | 3.9 | NA | noncoding (973/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 316220 | NA (NA) | noncoding (992/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | 4608119 = | 27 (0.780) | 4 (0.120) | 4/258 | 4.0 | 12.7% | coding (317/414 nt) | holD | DNA polymerase III, psi subunit |
| ? | NC_000913 | 4608161 = | 29 (0.870) | coding (359/414 nt) | holD | DNA polymerase III, psi subunit | |||||
| * | ? | NC_000913 | = 4593141 | 32 (0.920) | 4 (0.120) | 4/260 | 4.0 | 11.5% | coding (1485/1656 nt) | tsr | methyl‑accepting chemotaxis protein I, serine sensor receptor |
| ? | NC_000913 | = 4593191 | 31 (0.930) | coding (1535/1656 nt) | tsr | methyl‑accepting chemotaxis protein I, serine sensor receptor | |||||
| * | ? | NC_000913 | = 3440126 | 55 (1.580) | 4 (0.120) | 4/258 | 4.0 | 7.0% | coding (904/990 nt) | rpoA | RNA polymerase, alpha subunit |
| ? | NC_000913 | = 3440131 | 53 (1.600) | coding (899/990 nt) | rpoA | RNA polymerase, alpha subunit | |||||
| * | ? | NC_000913 | 2617476 = | 29 (0.840) | 4 (0.120) | 4/258 | 4.0 | 12.4% | coding (1383/1464 nt) | bepA | OM protein maintenance and assembly metalloprotease and chaperone, periplasmic |
| ? | NC_000913 | 2617529 = | 29 (0.870) | coding (1436/1464 nt) | bepA | OM protein maintenance and assembly metalloprotease and chaperone, periplasmic | |||||
| * | ? | NC_000913 | = 2472970 | 28 (0.810) | 4 (0.120) | 4/256 | 4.0 | 12.6% | pseudogene (616/708 nt) | oweS | pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related |
| ? | NC_000913 | = 2473031 | 29 (0.880) | pseudogene (555/708 nt) | oweS | pseudogene, CPS‑53 (KpLE1) prophage; bacteriophage replication protein O family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 1604785 = | 42 (1.210) | 4 (0.120) | 4/256 | 4.0 | 8.6% | coding (739/993 nt) | lsrD | autoinducer 2 import system permease protein |
| ? | NC_000913 | 1604815 = | 45 (1.370) | coding (769/993 nt) | lsrD | autoinducer 2 import system permease protein | |||||
| * | ? | NC_000913 | = 1396634 | NA (NA) | 4 (0.120) | 4/256 | 4.0 | 11.3% | noncoding (591/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 1428170 = | 33 (0.950) | noncoding (625/1196 nt) | IS5 | repeat region | |||||