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 120 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 | 60.0% | 38.4 / 27.1 | 20 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 60.0% | 7.6 / 17.9 | 20 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 60.0% | 7.3 / 32.3 | 20 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 699,725 | 0 | A | G | 51.4% | ‑5.2 / 40.7 | 35 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 49.1% | ‑1.2 / 72.8 | 55 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,813 | 0 | T | G | 44.1% | 4.7 / 43.2 | 34 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 195,559 | 0 | C | A | 41.7% | 17.9 / 23.0 | 24 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,741,299 | 0 | C | T | 40.0% | 7.7 / 17.9 | 20 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 40.0% | 7.6 / 17.8 | 20 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 40.0% | 12.2 / 19.9 | 20 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 3,048,648 | 0 | A | C | 37.5% | 7.1 / 11.8 | 16 | intergenic (+60/‑236) | PP_2661/PP_2662 | hypothetical protein/hypothetical protein |
| * | NC_002947 | 1,327,127 | 0 | C | T | 36.6% | 40.6 / 36.6 | 41 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 5,988,945 | 0 | C | A | 35.0% | 57.7 / 30.1 | 42 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 2,282,817 | 0 | G | C | 34.4% | 38.5 / 27.6 | 32 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 34.4% | 38.8 / 28.4 | 32 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 34.1% | 46.4 / 35.6 | 44 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 2,282,822 | 0 | C | A | 33.3% | 42.4 / 23.7 | 34 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,508,832 | 0 | A | T | 33.3% | 18.9 / 13.0 | 18 | M109K (ATG→AAG) | PP_2203 | hypothetical protein |
| * | NC_002947 | 2,508,833 | 0 | T | C | 33.3% | 15.5 / 11.3 | 18 | M109V (ATG→GTG) | PP_2203 | hypothetical protein |
| * | NC_002947 | 5,685,956 | 0 | G | C | 33.3% | 18.9 / 19.3 | 24 | P331P (CCC→CCG) | PP_4988 | signal transduction histidine kinase CheA/CheY‑like receiver |
| Marginal new junction evidence (lowest skew 10 of 193 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 198337 = | 39 (1.230) | 8 (0.260) | 8/254 | 2.3 | 19.9% | coding (3843/26049 nt) | PP_0168 | putative surface adhesion protein |
| ? | NC_002947 | 200330 = | 27 (0.890) | coding (5836/26049 nt) | PP_0168 | putative surface adhesion protein | |||||
| * | ? | NC_002947 | = 5196440 | 44 (1.390) | 8 (0.270) | 7/246 | 2.5 | 15.7% | coding (123/690 nt) | ybgJ | allophanate hydrolase subunit 1 |
| ? | NC_002947 | = 5196465 | 45 (1.540) | coding (98/690 nt) | ybgJ | allophanate hydrolase subunit 1 | |||||
| * | ? | NC_002947 | = 2100000 | 30 (0.950) | 8 (0.270) | 7/246 | 2.5 | 18.7% | intergenic (‑68/‑137) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein |
| ? | NC_002947 | = 2100099 | 42 (1.440) | intergenic (‑167/‑38) | PP_1875/PP_1876 | two‑component system sensor histidine kinase/response regulator/AAA family ATP/GTP‑binding protein | |||||
| * | ? | NC_002947 | = 380858 | 44 (1.390) | 6 (0.230) | 6/220 | 2.5 | 12.3% | intergenic (+45/+64) | gbcB/PP_0317 | glycine‑betaine dioxygenase subunit/methyl‑accepting chemotaxis transducer |
| ? | NC_002947 | = 380892 | 49 (1.880) | intergenic (+79/+30) | gbcB/PP_0317 | glycine‑betaine dioxygenase subunit/methyl‑accepting chemotaxis transducer | |||||
| * | ? | NC_002947 | = 5635062 | 38 (1.200) | 7 (0.230) | 7/256 | 2.6 | 16.6% | coding (480/684 nt) | PP_5718 | membrane protein |
| ? | NC_002947 | = 5635072 | 34 (1.120) | coding (470/684 nt) | PP_5718 | membrane protein | |||||
| * | ? | NC_002947 | 5210267 = | 37 (1.170) | 6 (0.220) | 6/234 | 2.6 | 14.9% | intergenic (‑85/+93) | rnd/PP_4592 | ribonuclease D/metal dependent hydrolase |
| ? | NC_002947 | 5210358 = | 36 (1.300) | intergenic (‑176/+2) | rnd/PP_4592 | ribonuclease D/metal dependent hydrolase | |||||
| * | ? | NC_002947 | 1551361 = | 33 (1.040) | 7 (0.230) | 7/260 | 2.6 | 18.4% | intergenic (+78/+48) | groL/pykA | chaperonin GroEL/pyruvate kinase II |
| ? | NC_002947 | 1551400 = | 30 (0.970) | intergenic (+117/+9) | groL/pykA | chaperonin GroEL/pyruvate kinase II | |||||
| * | ? | NC_002947 | = 993188 | 57 (1.800) | 7 (0.230) | 7/258 | 2.6 | 11.8% | coding (192/1149 nt) | PP_0858 | methionine/glutamine aminotransferase |
| ? | NC_002947 | = 993207 | 49 (1.600) | coding (211/1149 nt) | PP_0858 | methionine/glutamine aminotransferase | |||||
| * | ? | NC_002947 | = 5669477 | 32 (1.010) | 7 (0.250) | 6/238 | 2.7 | 18.8% | intergenic (+27/‑98) | ahcY/metF | adenosylhomocysteinase/5,10‑methylenetetrahydrofolate reductase |
| ? | NC_002947 | = 5669498 | 32 (1.130) | intergenic (+48/‑77) | ahcY/metF | adenosylhomocysteinase/5,10‑methylenetetrahydrofolate reductase | |||||
| * | ? | NC_002947 | = 734332 | 29 (0.920) | 6 (0.210) | 6/244 | 2.7 | 17.8% | coding (988/1296 nt) | ndh | NADH dehydrogenase |
| ? | NC_002947 | = 734372 | 29 (1.000) | coding (948/1296 nt) | ndh | NADH dehydrogenase | |||||