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 197 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 69.7% | ‑1.3 / 31.9 | 33 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 3,090,826 | 0 | T | G | 68.6% | 4.1 / 18.8 | 35 | G67G (GGT→GGG) | hemW | radical SAM family heme chaperone HemW |
| * | NZ_CP009273 | 2,371,314 | 0 | G | A | 58.3% | 2.9 / 27.7 | 24 | F475F (TTC→TTT) | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| * | NZ_CP009273 | 595,032 | 0 | T | G | 56.0% | 8.2 / 17.7 | 25 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 595,035 | 0 | T | G | 56.0% | 1.1 / 18.5 | 25 | V289G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 937,169 | 0 | T | G | 55.3% | 10.1 / 36.9 | 38 | V252G (GTG→GGG) | dmsA | dimethylsulfoxide reductase subunit A |
| * | NZ_CP009273 | 2,687,654 | 0 | T | C | 54.5% | 10.0 / 20.2 | 22 | I417V (ATC→GTC) | purL | phosphoribosylformylglycinamidine synthase |
| * | NZ_CP009273 | 353,591 | 0 | T | C | 54.2% | 16.5 / 29.8 | 24 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 645,914 | 0 | A | G | 51.7% | 28.8 / 37.4 | 29 | T11T (ACT→ACC) | citE | citrate (pro‑3S)‑lyase subunit beta |
| * | NZ_CP009273 | 1,819,318 | 0 | G | A | 51.7% | 10.8 / 41.5 | 29 | intergenic (‑124/+79) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | NZ_CP009273 | 1,125,830 | 0 | C | T | 51.3% | 24.8 / 50.4 | 37 | A164T (GCG→ACG) | flgA | flagellar basal body P‑ring formation chaperone FlgA |
| * | NZ_CP009273 | 3,856,024 | 0 | C | G | 51.3% | ‑5.1 / 23.5 | 44 | pseudogene (940/1617 nt) | BW25113_RS19145 | PTS sugar transporter subunit IIB |
| * | NZ_CP009273 | 409,689 | 0 | T | G | 50.0% | ‑4.1 / 11.5 | 18 | P507P (CCA→CCC) | sbcC | exonuclease subunit SbcC |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 50.0% | 48.5 / 58.1 | 74 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 822,963 | 0 | T | G | 47.4% | 9.5 / 29.0 | 38 | D492A (GAC→GCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 1,432,473 | 0 | A | G | 47.2% | 26.4 / 14.6 | 36 | S857P (TCT→CCT) | nifJ | pyruvate:ferredoxin (flavodoxin) oxidoreductase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 46.6% | 59.5 / 51.5 | 74 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 645,920 | 0 | A | T | 46.4% | 20.8 / 13.0 | 28 | R9R (CGT→CGA) | citE | citrate (pro‑3S)‑lyase subunit beta |
| * | NZ_CP009273 | 1,819,313 | 0 | G | A | 46.4% | 17.0 / 17.1 | 28 | intergenic (‑119/+84) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | NZ_CP009273 | 701,009 | 0 | T | A | 46.2% | 18.7 / 13.0 | 26 | I537N (ATC→AAC) | nagE | PTS N‑acetyl glucosamine transporter subunit IIABC |
| 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 | = 1203261 | 38 (0.610) | 6 (0.120) | 6/130 | 2.5 | 19.5% | coding (305/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | = 1205058 | 19 (0.380) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 3144055 | 105 (1.680) | 8 (0.180) +24 bp |
4/114 | 2.8 | 9.8% | intergenic (+150/+122) | yghA/exbD | NADP(+)‑dependent aldehyde reductase/TonB system transport protein ExbD |
| ? | NZ_CP009273 | = 3632715 | 104 (1.660) | intergenic (+214/+30) | pitA/uspB | inorganic phosphate transporter PitA/universal stress protein UspB | |||||
| * | ? | NZ_CP009273 | 3423234 = | 83 (1.330) | 4 (0.070) | 3/140 | 3.6 | 5.3% | coding (149/258 nt) | yrdB | DUF1488 domain‑containing protein |
| ? | NZ_CP009273 | 3423267 = | 72 (1.330) | coding (116/258 nt) | yrdB | DUF1488 domain‑containing protein | |||||
| * | ? | NZ_CP009273 | = 4571590 | 79 (1.260) | 3 (0.050) | 3/158 | 3.9 | 3.7% | coding (1276/1590 nt) | hsdM | type I restriction‑modification system methyltransferase |
| ? | NZ_CP009273 | 4571594 = | 81 (1.330) | coding (1272/1590 nt) | hsdM | type I restriction‑modification system methyltransferase | |||||
| * | ? | NZ_CP009273 | = 3486555 | 89 (1.420) | 3 (0.050) | 3/160 | 3.9 | 3.4% | coding (629/1182 nt) | tsgA | MFS transporter TsgA |
| ? | NZ_CP009273 | 3486559 = | 84 (1.360) | coding (633/1182 nt) | tsgA | MFS transporter TsgA | |||||