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 68 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 699,725 | 0 | A | G | 61.4% | 24.6 / 38.2 | 44 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,127 | 0 | C | T | 60.0% | 2.9 / 44.9 | 45 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,277 | 0 | C | T | 59.1% | 11.2 / 15.0 | 22 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 55.6% | 47.7 / 40.4 | 27 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 55.6% | 15.3 / 17.6 | 27 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 55.6% | 3.3 / 49.5 | 27 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 54.5% | 36.4 / 34.0 | 22 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 54.5% | 7.2 / 16.8 | 22 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,749 | 0 | A | G | 46.9% | 11.7 / 56.7 | 49 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,274 | 0 | A | C | 45.5% | 5.2 / 19.0 | 22 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,945 | 0 | C | A | 44.7% | 44.7 / 32.5 | 38 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 44.4% | 14.2 / 19.5 | 27 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 44.4% | 7.9 / 22.9 | 27 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 44.4% | 18.1 / 24.6 | 27 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 195,634 | 0 | C | T | 43.9% | 7.1 / 41.1 | 41 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,961 | 0 | T | C | 42.9% | 37.7 / 40.8 | 42 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,967 | 0 | A | . | 42.4% | 50.1 / 46.3 | 35 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,900 | 0 | C | G | 41.2% | 52.4 / 34.3 | 34 | intergenic (+138/‑408) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 41.0% | 46.3 / 38.2 | 39 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 524,352 | 0 | G | C | 40.9% | 11.5 / 22.8 | 22 | intergenic (+216/‑600) | tyrS/PP_16SC | tyrosine‑‑tRNA ligase/16S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 118 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4876493 | 53 (1.710) | 10 (0.350) | 10/260 | 1.8 | 17.2% | intergenic (+286/+151) | PP_4284/pucM | transporter/5‑hydroxyisourate hydrolase |
| ? | NC_002947 | = 4876523 | 48 (1.700) | intergenic (+316/+121) | PP_4284/pucM | transporter/5‑hydroxyisourate hydrolase | |||||
| * | ? | NC_002947 | = 4533623 | 39 (1.260) | 8 (0.280) | 8/262 | 2.2 | 19.1% | intergenic (+21/‑153) | PP_4020/cpo | oxidoreductase/non‑heme chloroperoxidase |
| ? | NC_002947 | = 4533688 | 32 (1.130) | intergenic (+86/‑88) | PP_4020/cpo | oxidoreductase/non‑heme chloroperoxidase | |||||
| * | ? | NC_002947 | = 90374 | 48 (1.550) | 9 (0.330) | 8/254 | 2.2 | 16.4% | intergenic (+49/+73) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 90397 | 49 (1.780) | intergenic (+72/+50) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 1037774 = | 46 (1.480) | 8 (0.310) | 7/240 | 2.3 | 19.9% | intergenic (+16/+100) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase |
| ? | NC_002947 | 1037852 = | 26 (1.000) | intergenic (+94/+22) | PP_0896/PP_0897 | carbon‑nitrogen hydrolase family protein/class 1 fumarate hydratase | |||||
| * | ? | NC_002947 | = 6077900 | 37 (1.190) | 6 (0.230) | 6/238 | 2.5 | 13.8% | intergenic (‑146/+92) | PP_5329/PP_5330 | phosphate ABC transporter substrate‑binding protein/MFS transporter |
| ? | NC_002947 | = 6077952 | 44 (1.710) | intergenic (‑198/+40) | PP_5329/PP_5330 | phosphate ABC transporter substrate‑binding protein/MFS transporter | |||||
| * | ? | NC_002947 | 4159113 = | 31 (1.000) | 7 (0.250) | 7/260 | 2.5 | 20.0% | intergenic (+17/‑192) | PP_3661/PP_3662 | membrane protein/hypothetical protein |
| ? | NC_002947 | 4159201 = | 28 (0.990) | intergenic (+105/‑104) | PP_3661/PP_3662 | membrane protein/hypothetical protein | |||||
| * | ? | NC_002947 | 5816900 = | 35 (1.130) | 7 (0.240) | 7/268 | 2.6 | 17.1% | intergenic (+30/+99) | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| ? | NC_002947 | 5816983 = | 35 (1.200) | intergenic (+113/+16) | PP_5092/pilT | NLP/P60 protein/twitching motility protein | |||||
| * | ? | NC_002947 | 235331 = | 35 (1.130) | 6 (0.220) | 5/254 | 3.0 | 15.8% | intergenic (+28/+97) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase |
| ? | NC_002947 | 235390 = | 33 (1.200) | intergenic (+87/+38) | PP_0183/argH | glutathione S‑transferase/argininosuccinate lyase | |||||
| * | ? | NC_002947 | 5914213 = | 20 (0.640) | 4 (0.160) | 4/230 | 3.1 | 21.6% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914309 = | 13 (0.520) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 3947957 = | 34 (1.100) | 4 (0.160) | 4/230 | 3.1 | 18.9% | coding (136/1797 nt) | PP_3483 | type II secretion system protein |
| ? | NC_002947 | 3948042 = | 7 (0.280) | coding (51/1797 nt) | PP_3483 | type II secretion system protein | |||||