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 | 4,741,273 | 1 | . | C | 66.7% | 35.0 / 17.9 | 18 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 63.1% | 12.5 / 58.5 | 65 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 57.5% | 20.2 / 81.9 | 73 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 699,725 | 0 | A | G | 56.4% | 11.5 / 64.0 | 55 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 52.9% | ‑3.9 / 129.1 | 105 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,301 | 0 | A | C | 52.0% | ‑2.9 / 31.8 | 25 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 52.0% | ‑2.6 / 37.3 | 25 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 52.0% | 31.6 / 46.4 | 25 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 48.0% | 38.1 / 54.8 | 25 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 48.0% | ‑3.6 / 30.7 | 25 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 44.0% | 3.6 / 23.3 | 25 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,988,875 | 0 | T | C | 35.4% | 176.2 / 88.8 | 101 | intergenic (+113/‑433) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,891 | 0 | G | C | 35.3% | 219.1 / 107.3 | 102 | intergenic (+129/‑417) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,893 | 0 | C | G | 35.3% | 220.2 / 105.5 | 102 | intergenic (+131/‑415) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,881 | 0 | G | T | 35.0% | 200.0 / 89.1 | 101 | intergenic (+119/‑427) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,882 | 0 | C | T | 34.6% | 184.1 / 88.4 | 101 | intergenic (+120/‑426) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,880 | 0 | C | T | 34.3% | 185.7 / 87.2 | 102 | intergenic (+118/‑428) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,896 | 0 | C | T | 34.3% | 192.9 / 89.4 | 102 | intergenic (+134/‑412) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,885 | 0 | A | G | 34.0% | 192.3 / 84.2 | 104 | intergenic (+123/‑423) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,900 | 0 | C | G | 33.7% | 230.7 / 104.5 | 104 | intergenic (+138/‑408) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 1159 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 5914213 = | 91 (1.570) | 20 (0.440) | 12/210 | 3.1 | 23.3% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914309 = | 60 (1.320) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 5594143 = | 72 (1.240) | 16 (0.350) | 12/210 | 3.1 | 24.7% | intergenic (‑39/+106) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase |
| ? | NC_002947 | 5594236 = | 41 (0.900) | intergenic (‑132/+13) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase | |||||
| * | ? | NC_002947 | 4796627 = | 58 (1.000) | 18 (0.370) | 13/222 | 3.1 | 28.5% | intergenic (‑140/+78) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| ? | NC_002947 | 4796695 = | 42 (0.870) | intergenic (‑208/+10) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase | |||||
| * | ? | NC_002947 | 5311227 = | NA (NA) | 18 (0.320) | 15/256 | 3.2 | 47.1% | noncoding (1503/1522 nt) | PP_16SG | 16S ribosomal RNA |
| ? | NC_002947 | 5311239 = | 21 (0.360) | noncoding (1491/1522 nt) | PP_16SG | 16S ribosomal RNA | |||||
| * | ? | NC_002947 | 5477138 = | 16 (0.280) | 13 (0.330) | 9/184 | 3.4 | 33.8% | intergenic (+3/+109) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | 5477237 = | 40 (1.000) | intergenic (+102/+10) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | 4889614 = | 76 (1.310) | 12 (0.260) | 11/212 | 3.4 | 15.8% | intergenic (+15/‑138) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase |
| ? | NC_002947 | 4889705 = | 67 (1.460) | intergenic (+106/‑47) | hyi/glxR | hydroxypyruvate isomerase/2‑hydroxy‑3‑oxopropionate reductase | |||||
| * | ? | NC_002947 | 2954675 = | 74 (1.280) | 11 (0.230) | 11/218 | 3.5 | 14.4% | intergenic (‑135/‑146) | PP_2586/PP_2587 | putative amino acid transporter/LuxR family transcriptional regulator |
| ? | NC_002947 | 2954741 = | 70 (1.480) | intergenic (‑201/‑80) | PP_2586/PP_2587 | putative amino acid transporter/LuxR family transcriptional regulator | |||||
| * | ? | NC_002947 | 499197 = | 77 (1.330) | 12 (0.250) | 11/218 | 3.5 | 14.0% | intergenic (+38/‑258) | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein |
| ? | NC_002947 | 499284 = | 85 (1.800) | intergenic (+125/‑171) | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 703039 = | 56 (0.970) | 16 (0.300) | 12/244 | 3.7 | 25.3% | intergenic (+33/‑226) | PP_5SD/PP_0598 | 5S ribosomal RNA/paraquat‑inducible protein A |
| ? | NC_002947 | 2553931 = | 43 (0.810) | intergenic (+19/‑132) | PP_5SF/PP_2240 | 5S ribosomal RNA/ABC transporter permease/ATP‑binding protein | |||||
| * | ? | NC_002947 | 703014 = | 45 (0.780) | 16 (0.300) | 12/244 | 3.7 | 24.8% | intergenic (+8/‑251) | PP_5SD/PP_0598 | 5S ribosomal RNA/paraquat‑inducible protein A |
| ? | NC_002947 | 703050 = | 56 (1.060) | intergenic (+44/‑215) | PP_5SD/PP_0598 | 5S ribosomal RNA/paraquat‑inducible protein A | |||||