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 | 4,178,500 | 0 | C | T | 54.4% | 28.5 / 126.3 | 92 | R1075C (CGT→TGT) | rpoC | RNA polymerase, beta prime subunit |
| * | CP009273 | 3,434,282 | 0 | C | A | 35.5% | 97.1 / 98.9 | 93 | G36V (GGC→GTC) | rpoA | RNA polymerase, alpha subunit |
| * | CP009273 | 1,612,514 | 0 | T | G | 25.4% | 107.2 / 40.3 | 59 | K218Q (AAA→CAA) | marC | UPF0056 family inner membrane protein |
| * | CP009273 | 4,161,702 | 0 | T | C | 24.4% | 84.7 / 26.8 | 45 | intergenic (+18/‑283) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| * | CP009273 | 4,161,708 | 0 | G | T | 23.9% | 91.7 / 24.2 | 46 | intergenic (+24/‑277) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| * | CP009273 | 4,161,717 | 0 | G | A | 22.7% | 87.0 / 22.7 | 44 | intergenic (+33/‑268) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| * | CP009273 | 4,161,709 | 0 | A | T | 21.7% | 92.0 / 22.7 | 46 | intergenic (+25/‑276) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| * | CP009273 | 4,161,710 | 0 | A | T | 21.7% | 90.8 / 23.0 | 46 | intergenic (+26/‑275) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| * | CP009273 | 4,161,711 | 0 | A | C | 21.7% | 93.9 / 24.8 | 46 | intergenic (+27/‑274) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding |
| * | CP009273 | 3,656,913 | 0 | A | C | 20.0% | 142.1 / 27.1 | 60 | intergenic (+26/+337) | mdtF/gadW | anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX |
| * | CP009273 | 3,656,916 | 0 | A | C | 20.0% | 136.4 / 29.6 | 60 | intergenic (+29/+334) | mdtF/gadW | anaerobic multidrug efflux transporter, ArcA‑regulated/transcriptional activator of gadA and gadBC; repressor of gadX |
| Marginal new junction evidence (lowest skew 10 of 214 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 377602 | NA (NA) | 26 (0.360) | 23/262 | 3.2 | NA | coding (473/906 nt) | insD1 | IS2 transposase TnpB |
| ? | CP009273 | = 377709 | NA (NA) | coding (580/906 nt) | insD1 | IS2 transposase TnpB | |||||
| * | ? | CP009273 | 311112 = | NA (NA) | 19 (0.290) | 16/244 | 4.4 | NA | coding (111/300 nt) | insE1 | IS3 transposase A |
| ? | CP009273 | 311338 = | NA (NA) | coding (41/867 nt) | insF1 | IS3 transposase B | |||||
| * | ? | CP009273 | 2721617 = | NA (NA) | 18 (0.260) | 16/256 | 4.6 | NA | noncoding (927/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | CP009273 | 2721695 = | NA (NA) | noncoding (849/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | CP009273 | 269746 = | NA (NA) | 18 (0.250) | 17/266 | 4.6 | NA | noncoding (1115/1195 nt) | IS5 | repeat region |
| ? | CP009273 | 269797 = | NA (NA) | noncoding (1064/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | = 376950 | NA (NA) | 23 (0.330) | 15/260 | 5.0 | NA | coding (144/366 nt) | insC1 | IS2 repressor TnpA |
| ? | CP009273 | = 376996 | NA (NA) | coding (190/366 nt) | insC1 | IS2 repressor TnpA | |||||
| * | ? | CP009273 | 311274 = | NA (NA) | 17 (0.250) | 14/250 | 5.0 | NA | coding (273/300 nt) | insE1 | IS3 transposase A |
| ? | CP009273 | 311310 = | NA (NA) | coding (13/867 nt) | insF1 | IS3 transposase B | |||||
| * | ? | CP009273 | = 2060348 | 4 (0.050) | 21 (0.290) | 15/270 | 5.2 | 84.0% | noncoding (487/1195 nt) | IS5 | repeat region |
| ? | CP009273 | = 2095893 | NA (NA) | noncoding (532/1195 nt) | IS5 | repeat region | |||||
| * | ? | CP009273 | = 270329 | NA (NA) | 21 (0.290) | 15/270 | 5.2 | NA | noncoding (124/335 nt) | IS911 | repeat region |
| ? | CP009273 | = 270374 | NA (NA) | noncoding (169/335 nt) | IS911 | repeat region | |||||
| * | ? | CP009273 | = 16653 | NA (NA) | 15 (0.220) | 14/256 | 5.2 | NA | noncoding (1267/1345 nt) | IS186 | repeat region |
| ? | CP009273 | = 16691 | NA (NA) | noncoding (1305/1345 nt) | IS186 | repeat region | |||||
| * | ? | CP009273 | = 3420414 | NA (NA) | 13 (0.190) | 13/250 | 5.3 | NA | intergenic (‑22/+21) | alaU/ileU | tRNA‑Ala/tRNA‑Ile |
| ? | CP009273 | = 3420513 | NA (NA) | intergenic (‑2/+67) | ileU/rrsD | tRNA‑Ile/16S ribosomal RNA of rrnD operon | |||||