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 36 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,294,154 | 0 | G | T | 64.3% | ‑2.9 / 13.0 | 14 | T161N (ACC→AAC) | ubiT | SCP2 domain‑containing protein |
| * | NZ_CP009273 | 3,781,385 | 0 | T | G | 64.3% | 14.1 / 28.3 | 28 | G396G (GGT→GGG) | envC | murein hydrolase activator EnvC |
| * | NZ_CP009273 | 4,368,619 | 0 | A | C | 64.3% | 2.8 / 12.3 | 14 | V48G (GTA→GGA) | ampC | BlaEC family class C beta‑lactamase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 63.6% | ‑3.7 / 16.2 | 22 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 63.3% | ‑5.3 / 27.8 | 30 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 3,659,062 | 0 | C | A | 62.5% | 6.1 / 22.2 | 16 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 822,955 | 0 | T | G | 60.0% | 7.7 / 17.5 | 20 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 937,169 | 0 | T | G | 60.0% | ‑6.0 / 15.3 | 15 | V252G (GTG→GGG) | dmsA | dimethylsulfoxide reductase subunit A |
| * | NZ_CP009273 | 1,453,630 | 0 | C | G | 60.0% | 1.2 / 10.2 | 10 | A107G (GCG→GGG) | paaC | 3‑hydroxyacyl‑CoA dehydrogenase PaaC |
| * | NZ_CP009273 | 3,659,058 | 0 | T | C | 58.8% | 9.0 / 17.6 | 17 | D38G (GAT→GGT) | gadX | acid resistance transcriptional activator GadX |
| * | NZ_CP009273 | 353,591 | 0 | T | C | 58.3% | 11.2 / 27.7 | 24 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 1,257,298 | 0 | T | G | 58.3% | 2.1 / 12.6 | 12 | T12P (ACC→CCC) | prs | ribose‑phosphate diphosphokinase |
| * | NZ_CP009273 | 4,368,611 | 0 | G | A | 57.1% | 4.8 / 13.1 | 14 | Q51* (CAG→TAG) | ampC | BlaEC family class C beta‑lactamase |
| * | NZ_CP009273 | 276,800 | 0 | A | C | 56.2% | 37.0 / 40.0 | 32 | Y299D (TAT→GAT) | yagA | IS481‑like element ISEc19 family transposase |
| * | NZ_CP009273 | 3,268,928 | 0 | G | C | 55.6% | 6.3 / 10.6 | 9 | A96A (GCG→GCC) | garD | galactarate dehydratase |
| * | NZ_CP009273 | 1,152,727 | 0 | T | G | 54.5% | 9.6 / 13.5 | 11 | G165G (GGT→GGG) | ycfH | metal‑dependent hydrolase |
| * | NZ_CP009273 | 2,832,718 | 0 | T | G | 54.5% | 9.3 / 10.7 | 11 | intergenic (‑95/‑165) | ascG/ascF | DNA‑binding transcriptional regulator AscG/PTS cellobiose/arbutin/salicin transporter subunit IIBC |
| * | NZ_CP009273 | 4,368,602 | 0 | G | T | 54.5% | 1.5 / 10.7 | 11 | P54T (CCT→ACT) | ampC | BlaEC family class C beta‑lactamase |
| * | NZ_CP009273 | 4,368,606 | 0 | A | C | 54.5% | 8.1 / 12.8 | 13 | G52G (GGT→GGG) | ampC | BlaEC family class C beta‑lactamase |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 54.5% | ‑3.8 / 17.7 | 22 | 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 | 2507756 = | NA (NA) | 5 (0.300) | 5/162 | 0.9 | 14.7% | intergenic (+33/‑54) | nupC/BW25113_RS12490 | nucleoside permease NupC/IS4‑like element IS421 family transposase |
| ? | NZ_CP009273 | = 4533433 | 30 (1.760) | coding (502/549 nt) | fimA | type 1 fimbrial major subunit FimA | |||||