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 70 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,275 | 0 | A | G | 71.5% | 270.3 / 112.8 | 180 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 71.1% | 428.8 / 183.3 | 180 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,493,843 | 1 | . | T | 62.5% | ‑5.1 / 16.6 | 16 | coding (1442/1533 nt) | PP_3985 | transposase |
| * | NC_002947 | 4,493,846 | 0 | A | . | 62.5% | ‑5.8 / 20.8 | 16 | coding (1439/1533 nt) | PP_3985 | transposase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 58.6% | 131.1 / 197.8 | 193 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 58.0% | 389.4 / 300.6 | 193 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 58.0% | 100.1 / inf | 193 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 6,038,129 | 0 | C | G | 55.2% | ‑5.5 / 25.4 | 30 | R303T (AGG→ACG) ‡ | PP_5290 | transposase |
| * | NC_002947 | 6,038,130 | 0 | T | G | 55.2% | ‑5.5 / 18.6 | 29 | R303R (AGG→CGG) ‡ | PP_5290 | transposase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 54.0% | 69.2 / inf | 518 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 6,038,128 | 0 | C | A | 53.3% | ‑5.1 / 25.8 | 30 | R303S (AGG→AGT) ‡ | PP_5290 | transposase |
| * | NC_002947 | 699,725 | 0 | A | G | 49.6% | 32.8 / inf | 370 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 46.0% | 170.7 / inf | 541 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 5,312,765 | 0 | G | . | 44.4% | ‑5.8 / 10.8 | 10 | intergenic (‑36/+678) | PP_16SG/msrQ | 16S ribosomal RNA/methionine sulfoxide reductase heme‑binding subunit |
| * | NC_002947 | 4,741,299 | 0 | C | T | 42.0% | 148.8 / 182.2 | 193 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 42.0% | 169.6 / 225.8 | 193 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 41.7% | 124.9 / 202.4 | 193 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,312,760 | 1 | . | C | 40.0% | ‑6.5 / 13.9 | 10 | intergenic (‑31/+683) | PP_16SG/msrQ | 16S ribosomal RNA/methionine sulfoxide reductase heme‑binding subunit |
| * | NC_002947 | 195,634 | 0 | C | T | 37.2% | 543.9 / inf | 586 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,813 | 0 | T | G | 34.0% | 157.1 / 142.7 | 154 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 540 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 4808219 = | 27 (0.090) | 129 (0.550) | 63/216 | 6.1 | 55.9% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 183 (0.770) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 652785 | 300 (0.960) | 111 (0.410) | 51/246 | 10.8 | 46.2% | 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 | = 4808224 | 26 (0.080) | 129 (0.450) | 53/262 | 11.4 | 46.8% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 270 (0.940) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808224 | 26 (0.080) | 115 (0.430) | 38/246 | 14.6 | 47.1% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5989005 | 236 (0.880) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 5453186 | 24 (0.080) | 21 (0.100) +48 bp |
18/190 | 18.4 | 21.4% | intergenic (+151/‑204) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase |
| ? | NC_002947 | 5545674 = | 208 (0.660) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 5224548 = | 20 (0.060) | 21 (0.100) +48 bp |
18/190 | 18.4 | 21.7% | intergenic (‑204/+175) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | 5545674 = | 208 (0.660) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 4075662 = | 34 (0.110) | 21 (0.100) +48 bp |
18/190 | 18.4 | 20.7% | intergenic (‑204/+237) | PP_3586/tpx | transposase/2‑Cys peroxiredoxin |
| ? | NC_002947 | 5545674 = | 208 (0.660) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 3828223 = | 31 (0.100) | 21 (0.100) +48 bp |
18/190 | 18.4 | 20.9% | intergenic (‑204/+155) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit |
| ? | NC_002947 | 5545674 = | 208 (0.660) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 2939301 = | 27 (0.090) | 21 (0.100) +48 bp |
18/190 | 18.4 | 21.2% | intergenic (‑204/+236) | PP_2570/PP_2572 | transposase/hypothetical protein |
| ? | NC_002947 | 5545674 = | 208 (0.660) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 1440131 | 24 (0.080) | 21 (0.100) +48 bp |
18/190 | 18.4 | 21.4% | intergenic (‑455/‑204) | yveA/PP_1260 | aspartate‑proton symporter/transposase |
| ? | NC_002947 | 5545674 = | 208 (0.660) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||