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 40 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 | 53.6% | 8.3 / 97.1 | 69 | intergenic (+329/+45) | Y75_RS05375/Y75_RS05385 | hypothetical protein/RtT sRNA |
| * | NC_007779 | 1,097,540 | 0 | C | A | 39.2% | 97.2 / 67.8 | 74 | intergenic (+289/+85) | Y75_RS05375/Y75_RS05385 | hypothetical protein/RtT sRNA |
| * | NC_007779 | 3,205,091 | 0 | C | T | 34.3% | 104.4 / 34.7 | 67 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_007779 | 2,902,348 | 0 | C | A | 32.4% | 235.2 / 55.2 | 105 | intergenic (+318/+1055) | Y75_RS14470/queE | kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NC_007779 | 4,291,309 | 0 | T | A | 30.1% | 150.5 / 33.0 | 73 | intergenic (‑348/‑45) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NC_007779 | 29,486 | 0 | C | A | 28.4% | 178.2 / 33.5 | 74 | intergenic (+291/‑165) | dapB/Y75_RS00165 | 4‑hydroxy‑tetrahydrodipicolinate reductase/glutamine‑hydrolyzing carbamoyl‑phosphate synthase small subunit |
| * | NC_007779 | 2,004,055 | 0 | A | C | 28.0% | 171.4 / 12.6 | 75 | intergenic (‑129/+192) | Y75_RS10125/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NC_007779 | 3,404,073 | 0 | T | G | 27.8% | 152.3 / 16.8 | 72 | G245G (GGT→GGG) | Y75_RS16905 | oxidoreductase |
| * | NC_007779 | 4,609,024 | 0 | C | T | 27.8% | 182.0 / 36.3 | 90 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NC_007779 | 4,291,300 | 0 | G | A | 27.5% | 129.3 / 28.1 | 69 | intergenic (‑339/‑54) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NC_007779 | 2,553,488 | 0 | T | G | 27.4% | 125.8 / 11.9 | 62 | V457G (GTT→GGT) | murP | PTS N‑acetylmuramic acid transporter subunit IIBC |
| * | NC_007779 | 753,547 | 0 | T | A | 26.4% | 201.9 / 29.1 | 87 | intergenic (‑330/+60) | Y75_RS03720/gltA | type 1 fimbrial protein/citrate (Si)‑synthase |
| * | NC_007779 | 3,205,102 | 0 | C | A | 25.8% | 128.8 / 14.9 | 66 | intergenic (‑190/‑17) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_007779 | 2,902,342 | 0 | G | T | 24.8% | 319.1 / 17.1 | 109 | intergenic (+312/+1061) | Y75_RS14470/queE | kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NC_007779 | 2,902,371 | 0 | G | A | 24.8% | 213.8 / 55.4 | 101 | intergenic (+341/+1032) | Y75_RS14470/queE | kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NC_007779 | 3,189,759 | 0 | C | T | 24.7% | 235.1 / 15.6 | 98 | P158S (CCA→TCA) | Y75_RS15860 | fimbrial protein |
| * | NC_007779 | 4,291,306 | 0 | C | A | 24.7% | 186.3 / 13.8 | 73 | intergenic (‑345/‑48) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NC_007779 | 29,496 | 0 | T | A | 24.4% | 187.2 / 23.2 | 78 | intergenic (+301/‑155) | dapB/Y75_RS00165 | 4‑hydroxy‑tetrahydrodipicolinate reductase/glutamine‑hydrolyzing carbamoyl‑phosphate synthase small subunit |
| * | NC_007779 | 2,488,700 | 0 | G | A | 23.2% | 276.2 / 24.0 | 112 | S29L (TCA→TTA) | emrK | multidrug efflux MFS transporter periplasmic adaptor subunit EmrK |
| * | NC_007779 | 2,004,048 | 0 | G | A | 23.0% | 166.3 / 17.5 | 74 | intergenic (‑122/+199) | Y75_RS10125/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| 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 | 4547362 = | 114 (0.960) | 15 (0.130) | 14/478 | 13.4 | 11.2% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NC_007779 | 4547676 = | 127 (1.110) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||
| * | ? | NC_007779 | = 4547370 | 113 (0.960) | 10 (0.090) | 10/478 | 15.4 | 7.8% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA |
| ? | NC_007779 | = 4547666 | 126 (1.110) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria regulatory protein FimE/metal ABC transporter substrate‑binding lipoprotein/fibrin‑binding adhesin FimA | |||||