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 63 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,298 | 1 | . | T | 66.7% | 97.7 / 53.0 | 45 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 65.9% | 45.3 / 31.5 | 45 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 65.9% | 51.3 / 65.1 | 45 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 62.9% | 68.4 / 44.4 | 35 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 62.9% | 22.2 / 29.8 | 35 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 50.0% | 17.7 / 107.3 | 80 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 48.4% | 16.0 / 158.9 | 122 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,390 | 0 | T | C | 47.8% | 23.4 / 55.9 | 46 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 41.2% | 52.7 / 77.9 | 81 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,725 | 0 | A | G | 39.6% | 26.4 / 41.8 | 53 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 5,988,865 | 0 | G | A | 37.9% | 82.4 / 57.8 | 58 | intergenic (+103/‑443) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,351 | 0 | C | G | 36.4% | 88.1 / 78.9 | 78 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,880 | 0 | C | T | 35.1% | 90.8 / 49.0 | 59 | intergenic (+118/‑428) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,893 | 0 | C | G | 35.1% | 108.1 / 55.3 | 57 | intergenic (+131/‑415) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,896 | 0 | C | T | 35.1% | 91.5 / 48.6 | 57 | intergenic (+134/‑412) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,741,274 | 0 | A | C | 34.3% | 33.8 / 23.5 | 35 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 196,327 | 0 | A | C | 34.2% | 88.7 / 77.4 | 82 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,299 | 0 | C | T | 34.1% | 42.4 / 34.0 | 45 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,945 | 0 | C | A | 33.9% | 100.3 / 40.3 | 57 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,875 | 0 | T | C | 33.9% | 98.9 / 47.8 | 59 | intergenic (+113/‑433) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 283 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 6006595 = | 47 (0.880) | 12 (0.310) | 10/202 | 3.1 | 32.6% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 15 (0.380) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 176399 | NA (NA) | 27 (0.530) +CGAAA |
14/264 | 3.1 | 33.8% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 55 (1.030) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | 5816910 = | 64 (1.200) | 15 (0.330) | 11/238 | 3.4 | 22.6% | intergenic (+40/+89) | PP_5092/pilT | NLP/P60 protein/twitching motility protein |
| ? | NC_002947 | 5816973 = | 47 (1.020) | intergenic (+103/+26) | PP_5092/pilT | NLP/P60 protein/twitching motility protein | |||||
| * | ? | NC_002947 | = 652785 | 56 (1.050) | 13 (0.290) | 11/234 | 3.4 | 35.2% | 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 | = 1419584 | 38 (0.710) | 11 (0.270) | 9/210 | 3.5 | 29.3% | intergenic (‑67/+70) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419614 | 24 (0.590) | intergenic (‑97/+40) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 1156328 = | 37 (0.700) | 13 (0.300) | 10/224 | 3.5 | 29.1% | intergenic (+25/‑191) | PP_1013/yihS | sensor histidine kinase/aldose‑ketose isomerase |
| ? | NC_002947 | 1156401 = | 33 (0.760) | intergenic (+98/‑118) | PP_1013/yihS | sensor histidine kinase/aldose‑ketose isomerase | |||||
| * | ? | NC_002947 | 478264 = | 47 (0.880) | 10 (0.240) | 9/214 | 3.6 | 16.6% | intergenic (+9/+101) | PP_0393/cca | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine pyrophosphokinase/multifunctional tRNA nucleotidyltransferase/2',3'‑cyclic phosphodiesterase/2' nucleotidase/phosphatase |
| ? | NC_002947 | 478359 = | 64 (1.540) | intergenic (+104/+6) | PP_0393/cca | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine pyrophosphokinase/multifunctional tRNA nucleotidyltransferase/2',3'‑cyclic phosphodiesterase/2' nucleotidase/phosphatase | |||||
| * | ? | NC_002947 | = 5903825 | 61 (1.150) | 11 (0.220) | 11/254 | 3.7 | 15.6% | intergenic (+25/+82) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease |
| ? | NC_002947 | = 5903887 | 63 (1.280) | intergenic (+87/+20) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease | |||||
| * | ? | NC_002947 | = 4876546 | 68 (1.280) | 7 (0.210) +49 bp |
6/176 | 3.8 | 14.1% | intergenic (+339/+98) | PP_4284/pucM | transporter/5‑hydroxyisourate hydrolase |
| ? | NC_002947 | = 4876555 | 65 (1.220) | intergenic (+348/+89) | PP_4284/pucM | transporter/5‑hydroxyisourate hydrolase | |||||
| * | ? | NC_002947 | = 883865 | 21 (0.390) | 12 (0.300) | 8/210 | 3.8 | 39.3% | intergenic (+100/‑228) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator |
| ? | NC_002947 | = 883875 | 21 (0.520) | intergenic (+110/‑218) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator | |||||