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 (highest frequency 20 of 60 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,612,067 | 0 | A | G | 58.8% | 1.6 / 15.1 | 17 | E161G (GAG→GGG) | yjjJ | type II toxin‑antitoxin system HipA family toxin YjjJ |
| * | NZ_CP009273 | 1,617,072 | 0 | C | A | 54.5% | 0.4 / 13.1 | 11 | G25G (GGC→GGA) | mgtT | protein MgtT |
| * | NZ_CP009273 | 1,617,073 | 0 | G | A | 54.5% | ‑4.5 / 11.8 | 11 | E26K (GAA→AAA) | mgtT | protein MgtT |
| * | NZ_CP009273 | 1,608,161 | 0 | A | C | 53.3% | 13.6 / 20.4 | 15 | V267G (GTA→GGA) | sad | succinate‑semialdehyde dehydrogenase |
| * | NZ_CP009273 | 497,013 | 0 | A | C | 52.4% | 18.0 / 28.3 | 21 | intergenic (+128/+5) | gsk/ybaL | inosine/guanosine kinase/Kef family K(+) transporter |
| * | NZ_CP009273 | 71,566 | 0 | C | T | 50.0% | 4.3 / 11.3 | 16 | L134L (CTG→CTA) | thiB | thiamine ABC transporter substrate binding subunit |
| * | NZ_CP009273 | 3,199,794 | 0 | C | T | 48.4% | 11.8 / 20.6 | 31 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NZ_CP009273 | 3,634,341 | 0 | C | T | 47.8% | 11.9 / 11.2 | 23 | F40F (TTC→TTT) | dtpB | dipeptide/tripeptide permease DtpB |
| * | NZ_CP009273 | 1,453,604 | 0 | C | A | 47.1% | 12.2 / 13.3 | 17 | V98V (GTC→GTA) | paaC | 3‑hydroxyacyl‑CoA dehydrogenase PaaC |
| * | NZ_CP009273 | 324,518 | 0 | A | T | 45.7% | 50.4 / 51.0 | 72 | D176E (GAT→GAA) | betI | transcriptional regulator BetI |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 45.0% | 14.6 / 12.3 | 20 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 43.5% | 38.2 / 41.7 | 63 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 3,502,016 | 0 | A | G | 43.3% | 40.3 / 10.2 | 30 | F386S (TTC→TCC) | yhfW | phosphopentomutase |
| * | NZ_CP009273 | 353,591 | 0 | T | C | 42.1% | 106.4 / 27.1 | 76 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 3,611,723 | 0 | G | A | 41.7% | 22.9 / 11.2 | 24 | K196K (AAG→AAA) | nikE | nickel import ATP‑binding protein NikE |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 40.9% | 45.7 / 20.4 | 45 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 324,514 | 0 | T | G | 40.8% | 99.2 / 44.1 | 71 | T178P (ACC→CCC) | betI | transcriptional regulator BetI |
| * | NZ_CP009273 | 324,502 | 0 | A | G | 40.3% | 103.3 / 27.6 | 72 | S182P (TCC→CCC) | betI | transcriptional regulator BetI |
| * | NZ_CP009273 | 3,012,951 | 0 | A | T | 39.3% | 36.1 / 18.6 | 28 | L144F (TTA→TTT) | ssnA | putative aminohydrolase SsnA |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 37.8% | 47.4 / 20.6 | 45 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 314763 = | 127 (3.710) | 17 (0.500) | 14/248 | 0.8 | 11.8% | coding (950/1326 nt) | rclA | reactive chlorine resistance oxidoreductase RclA |
| ? | NZ_CP009273 | 376716 = | NA (NA) | coding (28/444 nt) | BW25113_RS01855 | transferase | |||||
| * | ? | NZ_CP009273 | 4532499 = | 13 (0.380) | 5 (0.160) | 5/230 | 1.9 | 19.2% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 30 (0.950) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 283583 | 83 (2.420) | 4 (0.120) | 4/234 | 2.1 | 4.1% | coding (1084/1611 nt) | yagH | glycoside hydrolase family 43 protein |
| ? | NZ_CP009273 | = 283644 | 109 (3.380) | coding (1145/1611 nt) | yagH | glycoside hydrolase family 43 protein | |||||
| * | ? | NZ_CP009273 | 1203246 = | 19 (0.550) | 3 (0.100) | 3/216 | 2.3 | 17.4% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 12 (0.400) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 3342514 = | 38 (1.110) | 3 (0.090) | 3/234 | 2.4 | 8.0% | coding (655/729 nt) | mtgA | monofunctional biosynthetic peptidoglycan transglycosylase |
| ? | NZ_CP009273 | 3342530 = | 33 (1.020) | coding (639/729 nt) | mtgA | monofunctional biosynthetic peptidoglycan transglycosylase | |||||
| * | ? | NZ_CP009273 | 2930783 = | 52 (1.520) | 3 (0.100) | 3/226 | 2.4 | 6.5% | intergenic (+65/‑44) | fucI/fucK | L‑fucose isomerase/L‑fuculokinase |
| ? | NZ_CP009273 | 2930811 = | 39 (1.250) | intergenic (+93/‑16) | fucI/fucK | L‑fucose isomerase/L‑fuculokinase | |||||