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 57 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,280 | 0 | C | T | 69.6% | 27.5 / 11.5 | 23 | intergenic (+471/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,277 | 0 | C | T | 63.6% | 22.4 / 10.6 | 23 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 60.9% | 44.6 / 26.9 | 23 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 56.5% | 4.6 / 21.4 | 25 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 52.0% | ‑2.6 / 31.2 | 25 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 52.0% | ‑0.8 / 31.1 | 25 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 50.0% | 4.8 / 27.4 | 25 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 50.0% | 26.8 / 46.7 | 25 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 49.0% | 44.5 / 146.7 | 104 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,298 | 1 | . | T | 48.0% | 38.3 / 55.7 | 25 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 46.3% | 10.0 / 63.8 | 54 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 43.4% | 34.5 / 90.6 | 76 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 43.0% | 61.7 / 139.2 | 122 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,274 | 0 | A | C | 39.1% | 19.8 / 12.4 | 23 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 196,390 | 0 | T | C | 35.0% | 111.5 / 71.0 | 81 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,276 | 0 | C | G | 34.8% | 28.7 / 12.8 | 23 | intergenic (+467/+285) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 2,958,849 | 0 | G | A | 31.4% | 47.2 / 24.0 | 35 | intergenic (+72/+70) | PP_2589/PP_2590 | aldehyde dehydrogenase family protein/ferric siderophore receptor |
| * | NC_002947 | 2,958,850 | 0 | G | C | 31.4% | 56.5 / 31.5 | 35 | intergenic (+73/+69) | PP_2589/PP_2590 | aldehyde dehydrogenase family protein/ferric siderophore receptor |
| * | NC_002947 | 4,842,941 | 0 | C | . | 31.2% | 144.1 / 73.1 | 64 | intergenic (+40/‑257) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| * | NC_002947 | 2,958,846 | 0 | G | C | 26.8% | 82.9 / 27.4 | 41 | intergenic (+69/+73) | PP_2589/PP_2590 | aldehyde dehydrogenase family protein/ferric siderophore receptor |
| Marginal new junction evidence (lowest skew 10 of 473 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 1967188 = | 37 (0.590) | 17 (0.370) | 13/196 | 3.0 | 35.9% | intergenic (+15/+104) | PP_1762/yciK | hypothetical protein/putative oxidoreductase |
| ? | NC_002947 | 1967284 = | 33 (0.710) | intergenic (+111/+8) | PP_1762/yciK | hypothetical protein/putative oxidoreductase | |||||
| * | ? | NC_002947 | = 4586100 | 63 (1.010) | 12 (0.270) | 12/186 | 3.1 | 24.3% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 30 (0.680) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 1970782 | 59 (0.950) | 19 (0.360) | 15/222 | 3.1 | 28.4% | intergenic (+33/‑233) | mtnA/PP_mr25 | methylthioribose‑1‑phosphate isomerase/gyrA regulatory region |
| ? | NC_002947 | = 1970844 | 46 (0.870) | intergenic (+95/‑171) | mtnA/PP_mr25 | methylthioribose‑1‑phosphate isomerase/gyrA regulatory region | |||||
| * | ? | NC_002947 | 4808219 = | 0 (0.000) | 17 (0.370) | 12/192 | 3.2 | 51.5% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988991 | 32 (0.700) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 883865 | 48 (0.770) | 14 (0.300) | 12/198 | 3.3 | 32.1% | intergenic (+100/‑228) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator |
| ? | NC_002947 | = 883875 | 23 (0.490) | intergenic (+110/‑218) | PP_0766/PP_0767 | hypothetical protein/LuxR family transcriptional regulator | |||||
| * | ? | NC_002947 | 917692 = | 62 (0.990) | 16 (0.280) | 15/240 | 3.4 | 20.7% | intergenic (‑123/+76) | PP_0798/opdC | GGDEF domain‑containing protein/histidine‑specific outer membrane porin D |
| ? | NC_002947 | 917754 = | 66 (1.160) | intergenic (‑185/+14) | PP_0798/opdC | GGDEF domain‑containing protein/histidine‑specific outer membrane porin D | |||||
| * | ? | NC_002947 | = 4340118 | 38 (0.610) | 17 (0.370) | 11/194 | 3.5 | 43.6% | intergenic (+59/‑272) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| ? | NC_002947 | = 4340134 | 16 (0.350) | intergenic (+75/‑256) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein | |||||
| * | ? | NC_002947 | 90359 = | 98 (1.570) | 17 (0.310) | 14/230 | 3.5 | 15.9% | intergenic (+34/+88) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein |
| ? | NC_002947 | 90414 = | 94 (1.720) | intergenic (+89/+33) | PP_0079/PP_0080 | transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | 2429928 = | 56 (0.900) | 12 (0.260) | 10/196 | 3.8 | 20.5% | intergenic (+15/+98) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase |
| ? | NC_002947 | 2430009 = | 51 (1.100) | intergenic (+96/+17) | PP_2129/PP_2130 | hypothetical protein/lytic transglycosylase | |||||
| * | ? | NC_002947 | 6006595 = | 7 (0.110) | 13 (0.290) | 9/190 | 4.0 | 44.8% | intergenic (+7/+92) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator |
| ? | NC_002947 | 6006679 = | 27 (0.600) | intergenic (+91/+8) | ydcJ/PP_5261 | metalloprotein/LysR family transcriptional regulator | |||||