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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 4,178,209 | 0 | C | T | 58.7% | 36.7 / 80.2 | 63 | R978C (CGT→TGT) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 4,178,500 | 0 | C | T | 51.8% | 4.6 / 127.9 | 83 | R1075C (CGT→TGT) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 3,997,395 | 0 | G | C | 25.8% | 155.5 / 14.0 | 63 | F48L (TTC→TTG) | rarD | putative chloramphenical resistance permease |
| * | CP009273 | 3,666,049 | 0 | T | G | 20.0% | 169.5 / 22.7 | 70 | G92G (GGT→GGG) | yhjC | LysR family putative transcriptional regulator |
| Marginal new junction evidence (lowest skew 10 of 454 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 4532507 | 57 (0.710) | 17 (0.230) | 15/246 | 4.3 | 27.8% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 35 (0.460) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4532499 = | 61 (0.760) | 13 (0.170) | 12/246 | 5.0 | 22.1% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 35 (0.460) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | = 377594 | NA (NA) | 14 (0.180) | 13/258 | 5.0 | NA | coding (465/906 nt) | insD1 | IS2 transposase TnpB |
| ? | CP009273 | = 377717 | NA (NA) | coding (588/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | CP009273 | = 4487744 | 88 (1.090) | 12 (0.160) | 12/248 | 5.1 | 12.5% | pseudogene (1253/1266 nt) | intB | pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase |
| ? | CP009273 | = 4487789 | 86 (1.130) | intergenic (+32/‑300) | intB/insC1 | pseudogene, integrase homology;IS, phage, Tn; Phage‑related functions and prophages; KpLE2 phage‑like element; P4‑like integrase/IS2 repressor TnpA | |||||
| * | ? | CP009273 | 223095 = | NA (NA) | 15 (0.200) | 12/250 | 5.1 | NA | noncoding (850/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | CP009273 | 223173 = | NA (NA) | noncoding (928/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | = 1274826 | 70 (0.870) | 13 (0.170) | 12/254 | 5.2 | 15.3% | intergenic (+22/‑494) | narK/narG | nitrate/nitrite transporter/nitrate reductase 1, alpha subunit |
| ? | CP009273 | = 1274914 | 77 (0.990) | intergenic (+110/‑406) | narK/narG | nitrate/nitrite transporter/nitrate reductase 1, alpha subunit | |||||
| * | ? | CP009273 | = 311174 | NA (NA) | 12 (0.150) | 12/256 | 5.2 | NA | coding (173/300 nt) | insE1 | IS3 transposase A |
| ? | CP009273 | = 311198 | NA (NA) | coding (197/300 nt) | insE1 | IS3 transposase A | |||||
| * | ? | CP009273 | 477977 = | 113 (1.400) | 14 (0.180) | 11/252 | 5.4 | 12.8% | coding (1883/3150 nt) | acrB | multidrug efflux system protein |
| ? | CP009273 | 478079 = | 83 (1.080) | coding (1781/3150 nt) | acrB | multidrug efflux system protein | |||||
| * | ? | CP009273 | = 221577 | NA (NA) | 16 (0.210) | 11/252 | 5.4 | NA | noncoding (1320/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | CP009273 | = 221679 | NA (NA) | noncoding (1422/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | CP009273 | = 220861 | NA (NA) | 12 (0.160) | 11/250 | 5.4 | NA | noncoding (604/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | CP009273 | = 220890 | NA (NA) | noncoding (633/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||