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 99 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 | 62.1% | 13.3 / 25.1 | 30 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 53.8% | ‑5.1 / 12.3 | 13 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 53.8% | ‑1.6 / 12.2 | 13 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 53.8% | ‑4.6 / 15.7 | 13 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 53.8% | 14.8 / 19.9 | 13 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,749 | 0 | A | G | 48.3% | 0.0 / 33.2 | 29 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 46.2% | 15.7 / 25.0 | 13 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 46.2% | ‑3.7 / 12.0 | 13 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 2,068,194 | 0 | A | T | 42.9% | 1.0 / 12.3 | 14 | intergenic (‑96/+25) | plsC/PP_1845 | 1‑acyl‑sn‑glycerol‑3‑phosphate acyltransferase/enoyl‑CoA hydratase/isomerase family protein |
| * | NC_002947 | 337,839 | 0 | C | T | 42.3% | 14.7 / 26.8 | 26 | intergenic (‑86/+43) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| * | NC_002947 | 1,327,127 | 0 | C | T | 38.9% | 27.3 / 35.6 | 37 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 196,390 | 0 | T | C | 38.2% | 39.8 / 29.6 | 34 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 337,828 | 0 | G | T | 37.5% | 28.3 / 18.1 | 24 | intergenic (‑75/+54) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| * | NC_002947 | 195,634 | 0 | C | T | 35.6% | 40.7 / 35.8 | 46 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 337,819 | 1 | . | A | 34.6% | 48.4 / 37.9 | 26 | intergenic (‑66/+63) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| * | NC_002947 | 337,822 | 0 | A | C | 34.6% | 28.1 / 24.4 | 26 | intergenic (‑69/+60) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| * | NC_002947 | 337,825 | 0 | C | G | 34.6% | 38.1 / 23.7 | 26 | intergenic (‑72/+57) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| * | NC_002947 | 337,830 | 0 | T | . | 34.6% | 44.2 / 30.5 | 26 | intergenic (‑77/+52) | PP_0279/PP_0280 | hypothetical protein/amino acid ABC transporter permease |
| * | NC_002947 | 1,458,128 | 0 | C | A | 33.3% | 32.0 / 19.5 | 27 | intergenic (+21/+19) | PP_1276/algA | hypothetical protein/mannose‑6‑phosphate isomerase/mannose‑1‑phosphate guanylyltransferase |
| * | NC_002947 | 2,134,314 | 0 | A | C | 33.3% | 14.6 / 19.7 | 24 | intergenic (‑37/+32) | PP_1892/fadE | hypothetical protein/medium‑long chain acyl‑CoA dehydrogenase |
| 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 | = 5743404 | 49 (1.930) | 10 (0.440) | 9/246 | 1.3 | 16.8% | intergenic (‑181/+66) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase |
| ? | NC_002947 | = 5743432 | 55 (2.390) | intergenic (‑209/+38) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase | |||||
| * | ? | NC_002947 | = 5903842 | 41 (1.610) | 7 (0.310) | 7/240 | 1.7 | 14.6% | intergenic (+42/+65) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease |
| ? | NC_002947 | = 5903870 | 46 (2.050) | intergenic (+70/+37) | PP_5176/spuH | hypothetical protein/spermidine/putrescine ABC transporter permease | |||||
| * | ? | NC_002947 | 4159127 = | 41 (1.610) | 7 (0.310) | 7/240 | 1.7 | 16.6% | intergenic (+31/‑178) | PP_3661/PP_3662 | membrane protein/hypothetical protein |
| ? | NC_002947 | 4159187 = | 34 (1.520) | intergenic (+91/‑118) | PP_3661/PP_3662 | membrane protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 1947843 | 32 (1.260) | 6 (0.290) | 6/220 | 1.7 | 17.2% | intergenic (‑61/+109) | PP_1748/PP_1749 | hypothetical protein/acetyltransferase |
| ? | NC_002947 | = 1947910 | 32 (1.560) | intergenic (‑128/+42) | PP_1748/PP_1749 | hypothetical protein/acetyltransferase | |||||
| * | ? | NC_002947 | 5628645 = | 40 (1.580) | 7 (0.300) | 7/254 | 1.8 | 17.2% | intergenic (‑64/+43) | rlmJ/putP | 23S rRNA (adenine(2030)‑N(6))‑methyltransferase/sodium/L‑proline transporter |
| ? | NC_002947 | 5628678 = | 30 (1.270) | intergenic (‑97/+10) | rlmJ/putP | 23S rRNA (adenine(2030)‑N(6))‑methyltransferase/sodium/L‑proline transporter | |||||
| * | ? | NC_002947 | 6060487 = | 45 (1.770) | 6 (0.260) | 6/244 | 2.0 | 12.6% | intergenic (+67/+114) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein |
| ? | NC_002947 | 6060574 = | 43 (1.890) | intergenic (+154/+27) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||
| * | ? | NC_002947 | 5537079 = | 30 (1.180) | 5 (0.250) | 5/218 | 2.0 | 18.9% | intergenic (+8/+95) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin |
| ? | NC_002947 | 5537155 = | 19 (0.930) | intergenic (+84/+19) | nadE/PP_4870 | NH(3)‑dependent NAD(+) synthetase/azurin | |||||
| * | ? | NC_002947 | = 499220 | 26 (1.020) | 6 (0.290) | 5/224 | 2.0 | 18.9% | intergenic (+61/‑235) | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 499259 | 30 (1.430) | intergenic (+100/‑196) | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 6000959 = | 35 (1.380) | 4 (0.200) | 4/212 | 2.2 | 11.9% | intergenic (+10/+99) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase |
| ? | NC_002947 | 6001053 = | 32 (1.620) | intergenic (+104/+5) | PP_5256/amaA | cyclic nucleotide‑binding protein/L‑pipecolate oxidase | |||||
| * | ? | NC_002947 | 4524512 = | 39 (1.540) | 5 (0.220) | 5/244 | 2.2 | 11.8% | intergenic (+91/‑102) | idh/PP_4013 | isocitrate dehydrogenase/MutT/nudix family protein |
| ? | NC_002947 | 4524584 = | 40 (1.760) | intergenic (+163/‑30) | idh/PP_4013 | isocitrate dehydrogenase/MutT/nudix family protein | |||||