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 (highest frequency 20 of 56 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,327,127 | 0 | C | T | 64.3% | 44.2 / 97.8 | 112 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,298 | 1 | . | T | 56.1% | 111.6 / 90.4 | 57 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 56.1% | 29.5 / 55.8 | 57 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 56.1% | 13.6 / 116.3 | 57 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 51.0% | ‑6.4 / 131.3 | 98 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 50.4% | 6.4 / 186.2 | 137 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 43.9% | 28.8 / 57.9 | 57 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 43.9% | 21.5 / 62.9 | 57 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 43.9% | 42.7 / 65.5 | 57 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 195,634 | 0 | C | T | 42.9% | 118.4 / 214.8 | 184 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,813 | 0 | T | G | 34.1% | 90.3 / 89.4 | 85 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,822 | 0 | C | A | 32.9% | 141.7 / 63.2 | 85 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,988,961 | 0 | T | C | 32.6% | 196.9 / 119.5 | 144 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,351 | 0 | C | G | 32.5% | 249.9 / 153.9 | 155 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,967 | 0 | A | . | 32.1% | 302.9 / 165.9 | 137 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,390 | 0 | T | C | 30.9% | 221.0 / 101.5 | 137 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,950 | 0 | C | T | 30.1% | 243.4 / 100.0 | 143 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 30.1% | 237.0 / 106.8 | 143 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 2,282,817 | 0 | G | C | 30.0% | 143.7 / 72.4 | 80 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 30.0% | 145.9 / 70.6 | 80 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 902 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 652785 | 66 (0.740) | 33 (0.440) | 24/230 | 3.1 | 54.0% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808204 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 6006630 | 59 (0.660) | 25 (0.380) | 18/198 | 3.5 | 39.3% | intergenic (+42/+57) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | = 6006642 | 34 (0.520) | intergenic (+54/+45) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 4861197 | 121 (1.360) | 29 (0.400) | 20/220 | 3.6 | 22.4% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 102 (1.410) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||
| * | ? | NC_002947 | = 4808224 | 0 (0.000) | 42 (0.520) | 22/246 | 3.8 | 43.1% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 111 (1.370) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 3828223 = | 10 (0.110) | 27 (0.330) | 21/252 | 4.1 | 63.3% | intergenic (‑204/+155) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit |
| ? | NC_002947 | 5224584 = | 22 (0.270) | intergenic (‑240/+139) | PP_4603/PP_4604 | transposase/DMT superfamily permease | |||||
| * | ? | NC_002947 | 3828223 = | 10 (0.110) | 29 (0.350) | 21/252 | 4.1 | 69.6% | intergenic (‑204/+155) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit |
| ? | NC_002947 | 3828259 = | 16 (0.190) | intergenic (‑240/+119) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit | |||||
| * | ? | NC_002947 | 5224575 = | 22 (0.250) | 26 (0.310) | 20/252 | 4.3 | 61.5% | intergenic (‑231/+148) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | = 5453177 | 12 (0.140) | intergenic (+142/‑213) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase | |||||
| * | ? | NC_002947 | 5224548 = | 5 (0.060) | 26 (0.310) | 20/252 | 4.3 | 66.1% | intergenic (‑204/+175) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | 5224584 = | 22 (0.270) | intergenic (‑240/+139) | PP_4603/PP_4604 | transposase/DMT superfamily permease | |||||
| * | ? | NC_002947 | 4075662 = | 6 (0.070) | 26 (0.310) | 20/252 | 4.3 | 65.3% | intergenic (‑204/+237) | PP_3586/tpx | transposase/2‑Cys peroxiredoxin |
| ? | NC_002947 | 5224584 = | 22 (0.270) | intergenic (‑240/+139) | PP_4603/PP_4604 | transposase/DMT superfamily permease | |||||
| * | ? | NC_002947 | 3828250 = | 16 (0.180) | 27 (0.330) | 20/252 | 4.3 | 66.7% | intergenic (‑231/+128) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit |
| ? | NC_002947 | = 5453177 | 12 (0.140) | intergenic (+142/‑213) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase | |||||