mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | ||
| * | NC_002947 | 278,742 | 1 | . | A | 70.0% | 68.0 / 28.8 | 30 | intergenic (‑237/+77) | PP_0224/sctC | DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein |
| * | NC_002947 | 4,348,705 | 0 | A | G | 47.8% | 35.6 / 154.4 | 111 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,121 | 0 | C | T | 42.6% | 46.8 / 67.7 | 61 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 5,603,056 | 0 | C | T | 41.7% | 10.4 / 22.3 | 24 | W142* (TGG→TGA) | PP_4924 | subtilase family serine protease |
| * | NC_002947 | 195,634 | 0 | C | T | 39.6% | 145.0 / 167.9 | 160 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,390 | 0 | T | C | 37.8% | 78.0 / 92.0 | 91 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 699,722 | 0 | A | G | 32.3% | 31.3 / 19.7 | 31 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 196,351 | 0 | C | G | 29.3% | 178.2 / 108.8 | 123 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,559 | 0 | C | A | 29.2% | 253.7 / 99.8 | 134 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,327 | 0 | A | C | 23.9% | 240.0 / 98.9 | 138 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,306 | 0 | T | C | 23.8% | 256.8 / 87.7 | 148 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 441,326 | 0 | G | . | 23.3% | 72.0 / 21.2 | 31 | coding (207/1173 nt) | bioF | 8‑amino‑7‑oxononanoate synthase |
| * | NC_002947 | 197,590 | 0 | T | C | 21.6% | 270.7 / 68.3 | 135 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,572 | 0 | G | A | 20.8% | 267.4 / 60.1 | 131 | K1026K (AAG→AAA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,583,571 | 0 | G | . | 20.0% | 65.1 / 12.6 | 25 | intergenic (‑144/+27) | treSB/glgE | bifunctional trehalose synthase B/maltokinase/alpha‑1,4‑glucan:maltose‑1‑phosphate maltosyltransferase |
| Marginal new junction evidence (lowest skew 10 of 71 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 4808174 = | 9 (0.130) | 17 (0.320) | 13/210 | 3.9 | 43.7% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 37 (0.700) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808179 | 6 (0.090) | 26 (0.410) | 12/256 | 5.3 | 44.3% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988765 = | 60 (0.940) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 652782 | 71 (1.010) | 14 (0.230) | 10/240 | 5.6 | 30.5% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808159 | 3 (0.050) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 4808179 | 6 (0.090) | 18 (0.300) | 5/240 | 7.8 | 42.8% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988949 | 43 (0.720) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 3948279 = | 75 (1.070) | 6 (0.090) | 6/270 | 8.0 | 8.4% | coding (361/531 nt) | PP_3484 | two‑component system response regulator |
| ? | NC_002947 | 3948317 = | 59 (0.870) | coding (323/531 nt) | PP_3484 | two‑component system response regulator | |||||
| * | ? | NC_002947 | 4786753 = | 103 (1.470) | 6 (0.090) | 5/266 | 8.4 | 5.9% | coding (561/7887 nt) | pvdJ | non‑ribosomal peptide synthetase |
| ? | NC_002947 | 4786784 = | 95 (1.430) | coding (530/7887 nt) | pvdJ | non‑ribosomal peptide synthetase | |||||
| * | ? | NC_002947 | 330893 = | 77 (1.100) | 5 (0.080) | 5/266 | 8.4 | 6.7% | coding (783/2298 nt) | PP_0272 | ferric siderophore receptor |
| ? | NC_002947 | 330949 = | 66 (0.990) | coding (839/2298 nt) | PP_0272 | ferric siderophore receptor | |||||
| * | ? | NC_002947 | = 478290 | 77 (1.100) | 3 (0.050) | 3/220 | 8.5 | 5.1% | intergenic (+38/+72) | PP_0393/cca | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine pyrophosphokinase/multifunctional tRNA nucleotidyltransferase/2',3'‑cyclic phosphodiesterase/2' nucleotidase/phosphatase |
| ? | NC_002947 | = 478325 | 51 (0.930) | intergenic (+73/+37) | PP_0393/cca | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine pyrophosphokinase/multifunctional tRNA nucleotidyltransferase/2',3'‑cyclic phosphodiesterase/2' nucleotidase/phosphatase | |||||
| * | ? | NC_002947 | = 906579 | 90 (1.280) | 5 (0.070) | 5/276 | 8.6 | 5.1% | coding (21/831 nt) | PP_0790 | inner membrane protein AmpE |
| ? | NC_002947 | = 906618 | 99 (1.430) | coding (60/831 nt) | PP_0790 | inner membrane protein AmpE | |||||
| * | ? | NC_002947 | 6141445 = | 78 (1.110) | 4 (0.060) | 4/262 | 8.9 | 5.2% | coding (1181/3159 nt) | cusA | CzcA family RND family copper transporter |
| ? | NC_002947 | 6141485 = | 74 (1.130) | coding (1221/3159 nt) | cusA | CzcA family RND family copper transporter | |||||