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 178 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,264,332 | 0 | A | T | 53.8% | 18.9 / 40.5 | 26 | I238F (ATT→TTT) | kdsA | 3‑deoxy‑8‑phosphooctulonate synthase |
| * | NZ_CP009273 | 1,995,399 | 0 | A | C | 51.1% | 52.5 / 74.6 | 45 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NZ_CP009273 | 4,277,638 | 0 | G | A | 46.0% | 42.5 / 31.4 | 50 | intergenic (‑339/‑54) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NZ_CP009273 | 2,897,051 | 0 | C | A | 44.9% | 76.6 / 28.3 | 49 | intergenic (+318/+1055) | ygcE/queE | FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NZ_CP009273 | 1,995,392 | 0 | G | A | 43.8% | 49.5 / 25.0 | 48 | intergenic (‑122/+199) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NZ_CP009273 | 1,009,488 | 0 | A | T | 42.5% | 57.6 / 17.1 | 41 | L258F (TTA→TTT) | pqiB | intermembrane transport protein PqiB |
| * | NZ_CP009273 | 1,264,335 | 0 | G | T | 42.3% | 21.6 / 10.2 | 26 | E239* (GAA→TAA) | kdsA | 3‑deoxy‑8‑phosphooctulonate synthase |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 41.7% | 77.4 / 23.0 | 60 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,089,571 | 0 | A | G | 41.3% | 60.8 / 12.5 | 47 | I83V (ATT→GTT) | hisF | imidazole glycerol phosphate synthase subunit HisF |
| * | NZ_CP009273 | 2,551,890 | 0 | A | C | 40.6% | 124.4 / 13.6 | 69 | V50G (GTG→GGG) | eutB | ethanolamine ammonia‑lyase subunit alpha |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 40.0% | 77.2 / 24.8 | 60 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 4,091,435 | 0 | T | G | 39.7% | 118.3 / 11.2 | 68 | intergenic (+77/‑183) | sodA/kdgT | superoxide dismutase [Mn]/2‑keto‑3‑deoxygluconate transporter |
| * | NZ_CP009273 | 2,997,280 | 0 | T | G | 39.7% | 100.3 / 11.0 | 59 | Y145D (TAT→GAT) | xdhC | xanthine dehydrogenase iron sulfur‑binding subunit XdhC |
| * | NZ_CP009273 | 3,753,744 | 0 | A | C | 39.6% | 51.1 / 16.8 | 48 | V289G (GTG→GGG) | selA | L‑seryl‑tRNA(Sec) selenium transferase |
| * | NZ_CP009273 | 4,277,647 | 0 | T | A | 39.6% | 59.4 / 31.4 | 48 | intergenic (‑348/‑45) | acs/nrfA | acetate‑‑CoA ligase/ammonia‑forming nitrite reductase cytochrome c552 subunit |
| * | NZ_CP009273 | 1,217,689 | 0 | G | A | 39.1% | 73.3 / 12.5 | 46 | pseudogene (2228/2243 nt) | BW25113_RS25990 | autotransporter outer membrane beta‑barrel domain‑containing protein |
| * | NZ_CP009273 | 4,091,442 | 0 | G | T | 38.8% | 85.5 / 35.1 | 67 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase [Mn]/2‑keto‑3‑deoxygluconate transporter |
| * | NZ_CP009273 | 937,169 | 0 | T | G | 38.3% | 78.7 / 16.8 | 47 | V252G (GTG→GGG) | dmsA | dimethylsulfoxide reductase subunit A |
| * | NZ_CP009273 | 2,897,074 | 0 | G | A | 38.3% | 64.8 / 31.1 | 49 | intergenic (+341/+1032) | ygcE/queE | FGGY‑family carbohydrate kinase/7‑carboxy‑7‑deazaguanine synthase QueE |
| * | NZ_CP009273 | 3,924,078 | 0 | T | G | 37.9% | 104.6 / 15.8 | 68 | T126P (ACC→CCC) | ravA | ATPase RavA |
| 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 | 1203246 = | 55 (0.860) | 20 (0.330) | 20/464 | 4.1 | 25.7% | coding (290/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | 1205075 = | 64 (1.070) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 4532507 | 71 (1.110) | 15 (0.240) | 15/478 | 5.8 | 20.9% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | = 4532803 | 45 (0.730) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | 4532499 = | 68 (1.060) | 14 (0.230) | 13/478 | 6.4 | 20.2% | intergenic (+49/‑433) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
| ? | NZ_CP009273 | 4532813 = | 45 (0.730) | intergenic (+363/‑119) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
| * | ? | NZ_CP009273 | = 1203261 | 57 (0.890) | 13 (0.220) | 12/464 | 6.6 | 18.1% | coding (305/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | = 1205058 | 64 (1.070) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||