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 27 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,327,121 | 0 | C | T | 61.4% | 6.0 / 72.8 | 70 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 52.3% | 0.3 / 84.9 | 65 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 5,988,844 | 0 | C | G | 43.5% | 18.4 / 27.0 | 23 | intergenic (+138/‑408) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,848 | 0 | C | T | 43.5% | 17.6 / 22.8 | 23 | intergenic (+142/‑404) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,835 | 0 | G | C | 41.2% | 11.2 / 18.3 | 17 | intergenic (+129/‑417) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,837 | 0 | C | G | 41.2% | 14.5 / 17.8 | 17 | intergenic (+131/‑415) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,840 | 0 | C | T | 41.2% | 12.7 / 14.0 | 17 | intergenic (+134/‑412) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,850 | 0 | C | T | 40.9% | 20.1 / 19.4 | 23 | intergenic (+144/‑402) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,829 | 0 | A | G | 40.0% | 7.3 / 12.1 | 17 | intergenic (+123/‑423) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,634 | 0 | C | T | 39.5% | 26.4 / 38.5 | 39 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,348,705 | 0 | A | G | 37.9% | 48.7 / 57.5 | 58 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 5,988,824 | 0 | C | T | 35.3% | 18.0 / 10.6 | 17 | intergenic (+118/‑428) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,825 | 0 | G | T | 35.3% | 15.4 / 12.9 | 17 | intergenic (+119/‑427) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,826 | 0 | C | T | 35.3% | 18.0 / 10.6 | 17 | intergenic (+120/‑426) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 29.6% | 37.7 / 16.5 | 29 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,894 | 0 | C | T | 28.6% | 44.6 / 16.2 | 29 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,889 | 0 | C | A | 28.0% | 43.5 / 12.6 | 25 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 195,559 | 0 | C | A | 27.8% | 59.5 / 18.6 | 36 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,905 | 0 | T | C | 26.7% | 48.7 / 15.6 | 30 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,911 | 0 | A | . | 25.8% | 72.9 / 24.7 | 31 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| Marginal new junction evidence (lowest skew 10 of 109 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 5988771 | 13 (0.420) | 6 (0.200) | 6/274 | 3.0 | 24.9% | intergenic (+65/‑481) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| ? | NC_002947 | 5988963 = | 24 (0.810) | intergenic (+257/‑289) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 4876426 = | 22 (0.700) | 6 (0.200) | 5/272 | 3.4 | 20.1% | intergenic (+264/+173) | PP_4284/pucM | transporter/5‑hydroxyisourate hydrolase |
| ? | NC_002947 | 4876502 = | 27 (0.920) | intergenic (+340/+97) | PP_4284/pucM | transporter/5‑hydroxyisourate hydrolase | |||||
| * | ? | NC_002947 | = 3792160 | 33 (1.060) | 5 (0.170) | 5/276 | 3.4 | 14.2% | coding (1158/1755 nt) | PP_3354 | acyl‑CoA dehydrogenase |
| ? | NC_002947 | = 3792195 | 29 (0.970) | coding (1123/1755 nt) | PP_3354 | acyl‑CoA dehydrogenase | |||||
| * | ? | NC_002947 | 1647433 = | 27 (0.860) | 5 (0.170) | 5/278 | 3.4 | 15.2% | coding (1289/1335 nt) | oprB‑II | carbohydrate‑selective porin |
| ? | NC_002947 | 1647473 = | 30 (1.000) | coding (1249/1335 nt) | oprB‑II | carbohydrate‑selective porin | |||||
| * | ? | NC_002947 | = 3753095 | 40 (1.280) | 5 (0.160) | 5/284 | 3.5 | 11.5% | coding (788/2823 nt) | PP_3316 | chaperone‑associated ATPase |
| ? | NC_002947 | = 3753152 | 38 (1.240) | coding (731/2823 nt) | PP_3316 | chaperone‑associated ATPase | |||||
| * | ? | NC_002947 | = 4586029 | 7 (0.220) | 4 (0.140) | 4/268 | 3.7 | 29.1% | intergenic (+112/+103) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586109 | 13 (0.450) | intergenic (+192/+23) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 5818083 = | 31 (0.990) | 4 (0.140) | 4/274 | 3.8 | 13.5% | coding (77/687 nt) | PP_5094 | PLP binding domain‑containing protein |
| ? | NC_002947 | 5818107 = | 22 (0.740) | coding (101/687 nt) | PP_5094 | PLP binding domain‑containing protein | |||||
| * | ? | NC_002947 | = 2701917 | 32 (1.020) | 4 (0.130) | 4/276 | 3.8 | 11.3% | coding (723/804 nt) | dkgB | 2,5‑diketo‑D‑gluconate reductase B |
| ? | NC_002947 | = 2701973 | 32 (1.080) | coding (667/804 nt) | dkgB | 2,5‑diketo‑D‑gluconate reductase B | |||||
| * | ? | NC_002947 | 2412849 = | 24 (0.770) | 6 (0.200) | 4/274 | 3.8 | 23.7% | intergenic (+113/‑308) | rlmM/PP_2114 | 23S rRNA (cytidine(2498)‑2'‑O)‑methyltransferase RlmM/transposase |
| ? | NC_002947 | 2412942 = | 16 (0.540) | intergenic (+206/‑215) | rlmM/PP_2114 | 23S rRNA (cytidine(2498)‑2'‑O)‑methyltransferase RlmM/transposase | |||||
| * | ? | NC_002947 | 670925 = | 22 (0.700) | 4 (0.130) | 4/276 | 3.8 | 14.6% | intergenic (+12/‑21) | pbpC/PP_0573 | peptidoglycan glycosyltransferase/hypothetical protein |
| ? | NC_002947 | 670972 = | 26 (0.870) | coding (27/1725 nt) | PP_0573 | hypothetical protein | |||||