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 210 shown, sorted by frequency from high to low) | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NZ_CP009273 | 1,906,007 | 0 | T | G | 63.3% | 11.4 / 19.5 | 30 | H276P (CAC→CCC) | htpX | protease HtpX |
* | NZ_CP009273 | 595,032 | 0 | T | G | 61.9% | ‑0.2 / 16.9 | 22 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
* | NZ_CP009273 | 595,035 | 0 | T | G | 59.1% | 1.9 / 17.2 | 22 | V289G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
* | NZ_CP009273 | 642,203 | 0 | T | G | 59.1% | 3.3 / 24.1 | 22 | T255P (ACC→CCC) | citG | triphosphoribosyl‑dephospho‑CoA synthase CitG |
* | NZ_CP009273 | 1,819,318 | 0 | G | A | 57.6% | ‑2.7 / 32.4 | 33 | intergenic (‑124/+79) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
* | NZ_CP009273 | 4,594,161 | 0 | C | T | 57.3% | 6.0 / 92.5 | 82 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
* | NZ_CP009273 | 822,955 | 0 | T | G | 55.6% | 32.1 / 45.5 | 37 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
* | NZ_CP009273 | 822,963 | 0 | T | G | 55.6% | 9.5 / 42.6 | 36 | D492A (GAC→GCC) | ybhF | ATP‑binding cassette domain‑containing protein |
* | NZ_CP009273 | 4,594,167 | 0 | C | T | 55.6% | 19.6 / 94.7 | 82 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
* | NZ_CP009273 | 1,819,313 | 0 | G | A | 54.5% | 1.1 / 33.1 | 33 | intergenic (‑119/+84) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
* | NZ_CP009273 | 497,020 | 0 | A | C | 54.2% | 8.4 / 31.1 | 24 | *559E (TAA→GAA) | ybaL | Kef family K(+) transporter |
* | NZ_CP009273 | 1,571,380 | 0 | A | C | 53.8% | 46.5 / 65.8 | 52 | V166G (GTA→GGA) | yddB | TonB‑dependent receptor plug domain‑containing protein |
* | NZ_CP009273 | 353,601 | 0 | C | A | 52.7% | 38.3 / 114.9 | 93 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
* | NZ_CP009273 | 497,028 | 0 | A | C | 51.8% | 27.1 / 38.4 | 27 | V556G (GTG→GGG) | ybaL | Kef family K(+) transporter |
* | NZ_CP009273 | 497,031 | 0 | A | C | 51.8% | 30.6 / 38.5 | 27 | V555G (GTG→GGG) | ybaL | Kef family K(+) transporter |
* | NZ_CP009273 | 1,906,011 | 0 | T | G | 51.7% | 21.6 / 29.7 | 30 | T275P (ACC→CCC) | htpX | protease HtpX |
* | NZ_CP009273 | 3,659,062 | 0 | C | A | 51.6% | 78.0 / 129.7 | 62 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
* | NZ_CP009273 | 1,548,257 | 0 | T | G | 51.1% | 45.9 / 55.0 | 45 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
* | NZ_CP009273 | 997,447 | 0 | T | G | 48.9% | 43.3 / 12.2 | 45 | V62G (GTA→GGA) | elfG | fimbrial protein |
* | NZ_CP009273 | 832,042 | 0 | C | G | 47.1% | 60.9 / 17.5 | 51 | A79G (GCG→GGG) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
Marginal new junction evidence (sorted from low to high skew) | |||||||||||
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seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
* | ? | NZ_CP009273 | 3610600 = | 98 (1.520) | 4 (0.070) | 4/150 | 3.2 | 4.5% | coding (226/765 nt) | nikD | nickel import ATP‑binding protein NikD |
? | NZ_CP009273 | 3610644 = | 81 (1.390) | coding (270/765 nt) | nikD | nickel import ATP‑binding protein NikD | |||||
* | ? | NZ_CP009273 | = 4532507 | 1 (0.020) | 3 (0.050) | 3/148 | 3.5 | 15.8% | intergenic (+57/‑425) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA |
? | NZ_CP009273 | = 4532803 | 31 (0.540) | intergenic (+353/‑129) | fimE/fimA | type 1 fimbria switch DNA invertase FimE/type 1 fimbrial major subunit FimA | |||||
* | ? | NZ_CP009273 | 142767 = | 57 (0.890) | 3 (0.050) | 3/148 | 3.5 | 5.3% | coding (1200/1230 nt) | yadE | polysaccharide deacetylase family protein |
? | NZ_CP009273 | 142790 = | 57 (0.990) | coding (1223/1230 nt) | yadE | polysaccharide deacetylase family protein |