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 62 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 | 62.5% | 49.4 / 28.0 | 24 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 62.5% | 16.8 / 18.3 | 24 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 62.5% | 19.7 / 35.5 | 24 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 196,351 | 0 | C | G | 47.9% | 31.3 / 71.3 | 49 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,945 | 0 | C | A | 47.6% | 27.3 / 53.2 | 42 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,967 | 0 | A | . | 47.2% | 57.1 / 64.2 | 37 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,961 | 0 | T | C | 46.3% | 11.7 / 50.1 | 41 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 699,725 | 0 | A | G | 45.5% | 4.0 / 35.2 | 33 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 5,988,950 | 0 | C | T | 45.0% | 23.0 / 48.5 | 40 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 45.0% | 19.9 / 46.7 | 40 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,348,749 | 0 | A | G | 44.2% | 27.7 / 59.8 | 52 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 41.5% | 36.5 / 60.5 | 53 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 37.5% | 20.7 / 15.1 | 24 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 37.5% | 15.8 / 18.1 | 24 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 37.5% | 25.1 / 19.6 | 24 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 2,939,310 | 0 | C | T | 36.0% | 18.5 / 17.7 | 25 | intergenic (‑213/+227) | PP_2570/PP_2572 | transposase/hypothetical protein |
| * | NC_002947 | 196,390 | 0 | T | C | 32.6% | 59.7 / 32.6 | 44 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,875 | 0 | T | C | 31.0% | 52.7 / 15.4 | 29 | intergenic (+113/‑433) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,327 | 0 | A | C | 30.6% | 71.6 / 41.7 | 49 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,880 | 0 | C | T | 29.0% | 55.1 / 17.1 | 31 | intergenic (+118/‑428) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 158 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 176399 | NA (NA) | 18 (0.520) +CGAAA |
13/262 | 1.8 | 19.7% | intergenic (+43/‑420) | PP_5SA/PP_16SB | 5S ribosomal RNA/16S ribosomal RNA |
| ? | NC_002947 | = 182013 | 76 (2.120) | intergenic (+2/+63) | PP_5SB/PP_0160 | 5S ribosomal RNA/ferrioxamine receptor | |||||
| * | ? | NC_002947 | 1443111 = | 56 (1.560) | 9 (0.310) | 9/222 | 2.1 | 18.1% | intergenic (‑42/+134) | ghrB/PP_1262 | 2‑ketoaldonate reductase/hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator |
| ? | NC_002947 | 1443179 = | 36 (1.230) | intergenic (‑110/+66) | ghrB/PP_1262 | 2‑ketoaldonate reductase/hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 5681397 = | 52 (1.450) | 8 (0.270) | 8/226 | 2.4 | 16.8% | intergenic (‑63/+145) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| ? | NC_002947 | 5681512 = | 36 (1.210) | intergenic (‑178/+30) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein | |||||
| * | ? | NC_002947 | = 2794965 | 40 (1.110) | 9 (0.280) | 9/246 | 2.4 | 19.3% | intergenic (+30/+82) | PP_2447/puuB | hypothetical protein/gamma‑glutamylputrescine oxidase |
| ? | NC_002947 | = 2795016 | 39 (1.200) | intergenic (+81/+31) | PP_2447/puuB | hypothetical protein/gamma‑glutamylputrescine oxidase | |||||
| * | ? | NC_002947 | 6060502 = | 36 (1.000) | 8 (0.240) | 8/252 | 2.7 | 19.0% | intergenic (+82/+99) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein |
| ? | NC_002947 | 6060559 = | 35 (1.050) | intergenic (+139/+42) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||
| * | ? | NC_002947 | 1706038 = | 25 (0.700) | 7 (0.200) | 7/260 | 3.0 | 22.6% | coding (61/924 nt) | PP_1500 | lipoprotein |
| ? | NC_002947 | 1706064 = | 24 (0.700) | coding (87/924 nt) | PP_1500 | lipoprotein | |||||
| * | ? | NC_002947 | = 3951141 | 39 (1.090) | 5 (0.180) | 5/216 | 3.1 | 14.5% | intergenic (‑61/+134) | PP_3486/PP_3487 | cytochrome c/hypothetical protein |
| ? | NC_002947 | = 3951201 | 28 (0.980) | intergenic (‑121/+74) | PP_3486/PP_3487 | cytochrome c/hypothetical protein | |||||
| * | ? | NC_002947 | = 1273270 | 48 (1.340) | 6 (0.190) | 6/242 | 3.1 | 12.3% | intergenic (+55/+113) | PP_1113/PP_1114 | pyridoxal‑phosphate dependent enzyme family protein/SEC‑C domain‑containing protein |
| ? | NC_002947 | = 1273329 | 43 (1.350) | intergenic (+114/+54) | PP_1113/PP_1114 | pyridoxal‑phosphate dependent enzyme family protein/SEC‑C domain‑containing protein | |||||
| * | ? | NC_002947 | 5827871 = | 54 (1.500) | 7 (0.210) | 6/250 | 3.2 | 11.5% | intergenic (+17/+182) | mtgA/rpoH | monofunctional biosynthetic peptidoglycan transglycosylase/RNA polymerase factor sigma‑32 |
| ? | NC_002947 | 5827979 = | 58 (1.760) | intergenic (+125/+74) | mtgA/rpoH | monofunctional biosynthetic peptidoglycan transglycosylase/RNA polymerase factor sigma‑32 | |||||
| * | ? | NC_002947 | = 4861197 | 51 (1.420) | 5 (0.170) | 5/222 | 3.2 | 12.7% | intergenic (‑103/+134) | ligA/PP_4275 | DNA ligase/cell division protein ZipA |
| ? | NC_002947 | = 4861238 | 27 (0.920) | intergenic (‑144/+93) | ligA/PP_4275 | DNA ligase/cell division protein ZipA | |||||