mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.2 revision caddc01d3be9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 87 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,277 | 0 | C | T | 74.7% | 159.5 / 47.2 | 92 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 67.4% | 112.9 / 69.5 | 92 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 67.0% | 207.5 / 114.5 | 92 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,070,268 | 0 | G | C | 60.5% | 18.4 / 41.5 | 38 | intergenic (+65/+79) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| * | NC_002947 | 1,070,265 | 0 | G | C | 59.5% | 18.6 / 41.7 | 37 | intergenic (+62/+82) | aroP‑I/PP_0928 | aromatic amino acid transport protein/K+‑dependent Na+/Ca+ exchanger‑like protein |
| * | NC_002947 | 1,327,127 | 0 | C | T | 57.3% | ‑5.4 / 271.8 | 228 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,725 | 0 | A | G | 55.2% | 28.5 / 173.0 | 144 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 53.9% | 23.8 / 268.9 | 219 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 52.4% | 189.7 / 184.6 | 103 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 52.4% | 149.5 / 233.8 | 103 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,184,591 | 0 | G | C | 52.2% | ‑2.8 / 34.4 | 23 | intergenic (‑201/‑211) | mltF/purL | membrane‑bound lytic murein transglycosylase F/phosphoribosylformylglycinamidine synthase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 52.0% | 21.0 / 126.0 | 103 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,184,594 | 0 | G | C | 50.0% | 0.9 / 37.5 | 24 | intergenic (‑204/‑208) | mltF/purL | membrane‑bound lytic murein transglycosylase F/phosphoribosylformylglycinamidine synthase |
| * | NC_002947 | 6,038,130 | 0 | T | G | 50.0% | ‑5.5 / 20.5 | 14 | R303R (AGG→CGG) ‡ | PP_5290 | transposase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 47.6% | 50.6 / 139.1 | 103 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 47.1% | 9.0 / 140.0 | 103 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 6,038,128 | 0 | C | A | 46.7% | ‑5.1 / 15.8 | 15 | R303S (AGG→AGT) ‡ | PP_5290 | transposase |
| * | NC_002947 | 6,038,129 | 0 | C | G | 46.7% | ‑5.1 / 20.5 | 15 | R303T (AGG→ACG) ‡ | PP_5290 | transposase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 46.6% | 42.3 / 112.7 | 103 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,740,523 | 0 | T | G | 42.6% | 27.0 / 78.4 | 61 | intergenic (+32/+39) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 1006 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 4808219 = | 11 (0.070) | 53 (0.460) | 32/196 | 4.6 | 47.7% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 108 (0.940) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 652785 | 108 (0.690) | 42 (0.320) | 29/226 | 6.4 | 47.8% | 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 | = 337811 | 112 (0.720) | 40 (0.330) | 22/210 | 7.6 | 33.2% | intergenic (‑58/+71) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| ? | NC_002947 | = 337839 | 73 (0.590) | intergenic (‑86/+43) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease | |||||
| * | ? | NC_002947 | = 4808224 | 10 (0.060) | 49 (0.350) | 26/242 | 7.8 | 36.1% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988821 = | 164 (1.160) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 6006595 = | 93 (0.600) | 34 (0.300) | 17/194 | 8.5 | 38.3% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 42 (0.370) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 5453186 | 12 (0.080) | 22 (0.220) +48 bp |
14/170 | 8.5 | 37.4% | intergenic (+151/‑204) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase |
| ? | NC_002947 | 5545674 = | 104 (0.670) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 5224548 = | 6 (0.040) | 22 (0.220) +48 bp |
14/170 | 8.5 | 38.6% | intergenic (‑204/+175) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | 5545674 = | 104 (0.670) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 4075662 = | 5 (0.030) | 22 (0.220) +48 bp |
14/170 | 8.5 | 38.8% | intergenic (‑204/+237) | PP_3586/tpx | transposase/2‑Cys peroxiredoxin |
| ? | NC_002947 | 5545674 = | 104 (0.670) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 3828223 = | 5 (0.030) | 22 (0.220) +48 bp |
14/170 | 8.5 | 38.8% | intergenic (‑204/+155) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit |
| ? | NC_002947 | 5545674 = | 104 (0.670) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 2939301 = | 7 (0.040) | 22 (0.220) +48 bp |
14/170 | 8.5 | 38.4% | intergenic (‑204/+236) | PP_2570/PP_2572 | transposase/hypothetical protein |
| ? | NC_002947 | 5545674 = | 104 (0.670) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||