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 72 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 | 73.7% | 44.4 / 11.9 | 19 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 73.7% | 35.1 / 17.1 | 19 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 64.9% | 9.5 / 29.0 | 37 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,725 | 0 | A | G | 63.6% | 24.1 / 28.6 | 33 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 56.1% | 4.5 / 43.6 | 42 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 50.0% | 2.0 / 49.0 | 36 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 5,545,683 | 0 | T | C | 50.0% | ‑4.1 / 13.5 | 14 | intergenic (‑775/+102) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| * | NC_002947 | 5,988,961 | 0 | T | C | 42.2% | 45.8 / 46.4 | 45 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,967 | 0 | A | . | 39.5% | 81.0 / 61.0 | 43 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,950 | 0 | C | T | 37.0% | 70.9 / 40.3 | 46 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,951 | 0 | A | G | 37.0% | 71.7 / 39.5 | 46 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,390 | 0 | T | C | 35.7% | 31.0 / 20.7 | 29 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,945 | 0 | C | A | 34.0% | 92.5 / 38.8 | 50 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,351 | 0 | C | G | 33.3% | 50.9 / 36.3 | 43 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,859,162 | 0 | C | G | 33.3% | 25.7 / 22.2 | 27 | intergenic (+40/+61) | PP_1661/PP_1662 | dehydrogenase/hypothetical protein |
| * | NC_002947 | 5,988,900 | 0 | C | G | 33.3% | 90.6 / 42.3 | 48 | intergenic (+138/‑408) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,893 | 0 | C | G | 32.6% | 100.9 / 39.0 | 49 | intergenic (+131/‑415) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,906 | 0 | C | T | 32.0% | 92.3 / 37.0 | 51 | intergenic (+144/‑402) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,306 | 0 | T | C | 31.8% | 56.5 / 30.3 | 44 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,327 | 0 | A | C | 31.8% | 47.1 / 38.3 | 44 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| 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 | 1443111 = | 47 (1.570) | 7 (0.290) | 7/230 | 2.0 | 18.3% | intergenic (‑42/+134) | ghrB/PP_1262 | 2‑ketoaldonate reductase/hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator |
| ? | NC_002947 | 1443179 = | 24 (0.980) | intergenic (‑110/+66) | ghrB/PP_1262 | 2‑ketoaldonate reductase/hydroxypyruvate/glyoxylate reductase/LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | = 5743386 | 40 (1.340) | 8 (0.290) | 7/262 | 2.3 | 15.2% | intergenic (‑163/+84) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase |
| ? | NC_002947 | = 5743450 | 52 (1.860) | intergenic (‑227/+20) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase | |||||
| * | ? | NC_002947 | 5743388 = | 40 (1.340) | 7 (0.240) | 7/274 | 2.4 | 13.3% | intergenic (‑165/+82) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase |
| ? | NC_002947 | 5743450 = | 52 (1.780) | intergenic (‑227/+20) | fbp/glgP | class 1 fructose‑1,6‑bisphosphatase/glycogen phosphorylase | |||||
| * | ? | NC_002947 | = 5594170 | 39 (1.300) | 6 (0.250) | 5/224 | 2.5 | 14.6% | intergenic (‑66/+79) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase |
| ? | NC_002947 | = 5594207 | 39 (1.630) | intergenic (‑103/+42) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase | |||||
| * | ? | NC_002947 | 6019304 = | 56 (1.870) | 5 (0.200) | 5/234 | 2.6 | 11.3% | intergenic (‑49/+96) | dadX/dadA‑II | alanine racemase/D‑amino acid:quinone oxidoreductase |
| ? | NC_002947 | 6019380 = | 32 (1.280) | intergenic (‑125/+20) | dadX/dadA‑II | alanine racemase/D‑amino acid:quinone oxidoreductase | |||||
| * | ? | NC_002947 | 5386730 = | 39 (1.300) | 6 (0.210) | 6/264 | 2.6 | 14.3% | coding (192/2811 nt) | dld2 | D‑lactate dehydrogenase |
| ? | NC_002947 | 5386761 = | 35 (1.240) | coding (223/2811 nt) | dld2 | D‑lactate dehydrogenase | |||||
| * | ? | NC_002947 | = 4803082 | 45 (1.510) | 6 (0.210) | 6/266 | 2.6 | 12.8% | coding (277/972 nt) | PP_4231 | xanthine dehydrogenase accessory factor |
| ? | NC_002947 | = 4803104 | 39 (1.370) | coding (255/972 nt) | PP_4231 | xanthine dehydrogenase accessory factor | |||||
| * | ? | NC_002947 | = 3941288 | 27 (0.900) | 6 (0.210) | 6/262 | 2.6 | 18.1% | coding (314/387 nt) | PP_3476 | type II secretion system protein G |
| ? | NC_002947 | = 3941297 | 29 (1.040) | coding (305/387 nt) | PP_3476 | type II secretion system protein G | |||||
| * | ? | NC_002947 | = 2087724 | 33 (1.100) | 7 (0.250) | 6/264 | 2.6 | 19.1% | intergenic (+494/+424) | PP_1865/aroH | transposase/3‑deoxy‑7‑phosphoheptulonate synthase |
| ? | NC_002947 | = 2256297 | 28 (0.990) | intergenic (+314/‑390) | asd/PP_1990 | aspartate‑semialdehyde dehydrogenase/transposase | |||||
| * | ? | NC_002947 | 5560460 = | 33 (1.100) | 6 (0.210) | 6/274 | 2.7 | 15.9% | coding (88/1188 nt) | hisZ | ATP phosphoribosyltransferase regulatory subunit |
| ? | NC_002947 | 5560489 = | 31 (1.060) | coding (59/1188 nt) | hisZ | ATP phosphoribosyltransferase regulatory subunit | |||||