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 | 2,643,292 | 0 | A | C | 20.9% | 210.7 / 11.2 | 92 | G785G (GGT→GGG) | yfhM | bacterial alpha2‑macroglobulin colonization factor ECAM; anti‑host protease defense factor; periplasmic inner membrane‑anchored lipoprotein |
| * | CP009273 | 1,460,467 | 0 | G | A | 20.5% | 269.2 / 55.3 | 122 | pseudogene (819/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| * | CP009273 | 1,460,458 | 0 | T | C | 20.2% | 284.8 / 45.9 | 124 | pseudogene (810/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Marginal new junction evidence (lowest skew 10 of 27 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | 1203246 = | 96 (0.760) | 19 (0.160) | 19/368 | 4.4 | 18.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | 1205075 = | 85 (0.730) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | = 1203261 | 97 (0.760) | 11 (0.090) | 11/368 | 6.3 | 11.3% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | CP009273 | = 1205058 | 84 (0.720) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | CP009273 | 2758779 = | 179 (1.410) | 4 (0.040) | 4/312 | 8.3 | 2.9% | intergenic (‑267/+93) | yfjL/yfjM | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein |
| ? | CP009273 | = 2758770 | 130 (1.320) | intergenic (‑258/+102) | yfjL/yfjM | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein/CP4‑57 prophage; uncharacterized protein | |||||
| * | ? | CP009273 | = 4532507 | 123 (0.970) | 6 (0.050) | 5/382 | 8.8 | 4.4% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | = 4532803 | 145 (1.200) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4532499 = | 128 (1.010) | 6 (0.050) | 5/382 | 8.8 | 4.3% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | CP009273 | 4532813 = | 146 (1.210) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | CP009273 | 4034022 = | 139 (1.100) | 3 (0.030) +43 bp |
3/314 | 8.9 | 2.4% | intergenic (+26/+244) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B |
| ? | CP009273 | = 4034161 | 166 (1.310) | intergenic (+165/+105) | rrfA/mobB | 5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B | |||||
| * | ? | CP009273 | = 603466 | 126 (0.990) | 4 (0.030) | 4/376 | 9.2 | 3.1% | intergenic (+22/‑55) | hokE/insL1 | toxic polypeptide, small/IS186 transposase |
| ? | CP009273 | 604816 = | 131 (1.100) | intergenic (+183/+99) | insL1/entD | IS186 transposase/phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex | |||||
| * | ? | CP009273 | 3208822 = | 143 (1.130) | 4 (0.030) | 4/382 | 9.3 | 3.1% | coding (11/507 nt) | mug | G/U mismatch‑specific DNA glycosylase; xanthine DNA glycosylase |
| ? | CP009273 | 3209678 = | 114 (0.940) | coding (173/765 nt) | yqjH | putative siderophore interacting protein | |||||
| * | ? | CP009273 | 4438306 = | 173 (1.360) | 3 (0.020) | 3/380 | 9.8 | 1.8% | coding (43/252 nt) | chpS | antitoxin of the ChpBS toxin‑antitoxin system |
| ? | CP009273 | 4438646 = | 172 (1.430) | coding (138/351 nt) | chpB | toxin of the ChpB‑ChpS toxin‑antitoxin system | |||||
| * | ? | CP009273 | 4161677 = | 182 (1.430) | 3 (0.020) +GGAATTAATT |
3/380 | 9.8 | 1.6% | noncoding (113/120 nt) | rrfB | 5S ribosomal RNA of rrnB operon |
| ? | CP009273 | = 4161849 | 199 (1.570) | intergenic (+165/‑136) | rrfB/murB | 5S ribosomal RNA of rrnB operon/UDP‑N‑acetylenolpyruvoylglucosamine reductase, FAD‑binding | |||||