mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 52 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_007779 | 1,097,580 | 0 | C | T | 41.1% | 44.9 / 86.3 | 74 | intergenic (+329/+45) | Y75_RS05375/Y75_RS05385 | hypothetical protein/RtT sRNA |
| * | NC_007779 | 29,496 | 0 | T | A | 30.0% | 188.9 / 40.1 | 90 | intergenic (+301/‑155) | dapB/Y75_RS00165 | 4‑hydroxy‑tetrahydrodipicolinate reductase/glutamine‑hydrolyzing carbamoyl‑phosphate synthase small subunit |
| * | NC_007779 | 3,205,091 | 0 | C | T | 29.4% | 122.6 / 20.8 | 69 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_007779 | 2,004,055 | 0 | A | C | 29.3% | 163.5 / 11.0 | 75 | intergenic (‑129/+192) | Y75_RS10125/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NC_007779 | 2,902,342 | 0 | G | T | 28.9% | 301.5 / 27.2 | 114 | intergenic (+312/+1061) | Y75_RS14470/queE | kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NC_007779 | 2,488,700 | 0 | G | A | 28.5% | 354.1 / 46.0 | 165 | S29L (TCA→TTA) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NC_007779 | 2,902,348 | 0 | C | A | 28.2% | 262.3 / 49.9 | 110 | intergenic (+318/+1055) | Y75_RS14470/queE | kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NC_007779 | 1,826,775 | 0 | G | A | 27.7% | 171.1 / 34.6 | 83 | intergenic (‑124/+79) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone |
| * | NC_007779 | 4,291,309 | 0 | T | A | 27.6% | 233.6 / 34.8 | 105 | intergenic (‑348/‑45) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NC_007779 | 2,902,371 | 0 | G | A | 27.1% | 237.6 / 69.3 | 119 | intergenic (+341/+1032) | Y75_RS14470/queE | kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NC_007779 | 2,391,532 | 0 | G | A | 27.0% | 139.5 / 41.2 | 74 | intergenic (+31/‑72) | Y75_RS11940/Y75_RS11945 | M28 family peptidase/YfbM family protein |
| * | NC_007779 | 753,547 | 0 | T | A | 26.9% | 259.2 / 32.2 | 108 | intergenic (‑330/+60) | Y75_RS03720/gltA | type 1 fimbrial protein/citrate (Si)‑synthase |
| * | NC_007779 | 3,764,894 | 0 | A | G | 26.7% | 150.1 / 32.7 | 86 | A28A (GCT→GCC) | Y75_RS18670 | hypothetical protein |
| * | NC_007779 | 3,764,893 | 0 | G | C | 26.2% | 183.5 / 35.4 | 86 | L29V (CTG→GTG) | Y75_RS18670 | hypothetical protein |
| * | NC_007779 | 3,894,906 | 0 | T | A | 26.2% | 148.7 / 12.9 | 65 | T236S (ACC→TCC) | yiaN | 2,3‑diketo‑L‑gulonate transporter large permease YiaN |
| * | NC_007779 | 1,097,540 | 0 | C | A | 25.7% | 157.6 / 36.8 | 70 | intergenic (+289/+85) | Y75_RS05375/Y75_RS05385 | hypothetical protein/RtT sRNA |
| * | NC_007779 | 3,764,886 | 0 | G | C | 25.6% | 172.6 / 42.4 | 89 | S31C (TCC→TGC) | Y75_RS18670 | hypothetical protein |
| * | NC_007779 | 3,475,533 | 0 | C | T | 25.5% | 227.2 / 31.3 | 106 | E10K (GAA→AAA) | fabR | HTH‑type transcriptional repressor FabR |
| * | NC_007779 | 3,764,884 | 0 | G | A | 24.7% | 181.8 / 25.4 | 90 | H32Y (CAT→TAT) | Y75_RS18670 | hypothetical protein |
| * | NC_007779 | 3,404,073 | 0 | T | G | 24.5% | 231.7 / 12.3 | 94 | G245G (GGT→GGG) | Y75_RS16905 | oxidoreductase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_007779 | = 2946123 | 34 (0.250) | 4 (0.040) | 4/330 | 16.8 | 12.2% | intergenic (+4/‑30) | Y75_RS14670/Y75_RS14675 | tRNA‑Met/tRNA‑Met |
| ? | NC_007779 | 2946344 = | 35 (0.390) | intergenic (+5/+69) | Y75_RS14680/Y75_RS14685 | tRNA‑Met/N‑acetylmuramoyl‑L‑alanine amidase AmiC | |||||
| * | ? | NC_007779 | = 697163 | 96 (0.710) | 4 (0.040) | 4/340 | 17.2 | 5.4% | intergenic (‑1/+15) | Y75_RS03450/Y75_RS03455 | tRNA‑Met/tRNA‑Gln |
| ? | NC_007779 | 697557 = | 75 (0.810) | intergenic (‑2/+378) | Y75_RS03470/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NC_007779 | 1413613 = | 154 (1.140) | 3 (0.020) | 3/444 | 21.4 | 2.3% | coding (50/936 nt) | ttcA | tRNA 2‑thiocytidine(32) synthetase TtcA |
| ? | NC_007779 | = 1436672 | 118 (0.970) | intergenic (+39/+227) | Y75_RS24865/uspF | hypothetical protein/universal stress protein UspF | |||||
| * | ? | NC_007779 | 4330520 = | 114 (0.840) | 8 (0.060) +AAC |
3/490 | 22.6 | 6.5% | intergenic (‑101/+557) | yjdN/Y75_RS21430 | VOC family metalloprotein YjdN/phnA family protein |
| ? | NC_007779 | = 4331016 | 119 (0.880) | intergenic (‑597/+61) | yjdN/Y75_RS21430 | VOC family metalloprotein YjdN/phnA family protein | |||||
| * | ? | NC_007779 | = 1476754 | 142 (1.050) | 3 (0.020) | 3/488 | 22.6 | 2.2% | coding (820/861 nt) | pdxI | pyridoxine 4‑dehydrogenase |
| ? | NC_007779 | 4112670 = | 126 (0.950) | coding (1278/2136 nt) | igaA | intracellular growth attenuator protein IgaA | |||||