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 75 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 | 66.7% | 31.7 / 23.7 | 33 | intergenic (+471/+281) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,277 | 0 | C | T | 63.6% | 24.8 / 28.0 | 33 | intergenic (+468/+284) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 60.6% | 63.5 / 47.6 | 33 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,275 | 0 | A | G | 60.6% | 20.7 / 29.6 | 33 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,298 | 1 | . | T | 60.5% | 84.8 / 59.4 | 43 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 60.5% | 28.0 / 39.9 | 43 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | . | 59.5% | 19.5 / 79.1 | 43 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 2,282,813 | 0 | T | G | 59.0% | 18.7 / 37.5 | 39 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 699,725 | 0 | A | G | 57.5% | 21.1 / 45.7 | 47 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 2,282,822 | 0 | C | A | 57.1% | ‑0.3 / 38.3 | 35 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,817 | 0 | G | C | 55.6% | ‑3.6 / 49.2 | 36 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,818 | 0 | G | C | 55.6% | ‑0.3 / 45.3 | 36 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,348,749 | 0 | A | G | 53.2% | ‑0.7 / 58.4 | 48 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 45.2% | 32.2 / 72.7 | 64 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,741,299 | 0 | C | T | 39.5% | 28.5 / 40.3 | 43 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 39.5% | 25.9 / 41.6 | 43 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 39.5% | 37.7 / 47.2 | 43 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,274 | 0 | A | C | 37.5% | 16.5 / 32.3 | 33 | intergenic (+465/+287) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 5,655,692 | 0 | T | . | 37.5% | 43.8 / 29.1 | 25 | intergenic (‑96/+56) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 4,741,276 | 0 | C | G | 36.4% | 36.1 / 30.6 | 33 | intergenic (+467/+285) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Marginal new junction evidence (lowest skew 10 of 143 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4886209 | 32 (0.710) | 8 (0.220) | 8/220 | 3.1 | 27.4% | intergenic (+43/+80) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein |
| ? | NC_002947 | = 4886238 | 17 (0.480) | intergenic (+72/+51) | PP_4295/PP_4296 | TetR family transcriptional regulator/hypothetical protein | |||||
| * | ? | NC_002947 | = 4586100 | 12 (0.270) | 9 (0.280) | 7/202 | 3.1 | 51.8% | intergenic (+139/+78) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586128 | 8 (0.250) | intergenic (+167/+50) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 5477178 | 25 (0.560) | 6 (0.190) | 6/196 | 3.4 | 28.8% | intergenic (+43/+69) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | = 5477195 | 12 (0.380) | intergenic (+60/+52) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | 478264 = | 33 (0.730) | 8 (0.230) | 7/218 | 3.4 | 27.2% | intergenic (+9/+101) | PP_0393/cca | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine pyrophosphokinase/multifunctional tRNA nucleotidyltransferase/2',3'‑cyclic phosphodiesterase/2' nucleotidase/phosphatase |
| ? | NC_002947 | 478359 = | 17 (0.480) | intergenic (+104/+6) | PP_0393/cca | 2‑amino‑4‑hydroxy‑6‑ hydroxymethyldihydropteridine pyrophosphokinase/multifunctional tRNA nucleotidyltransferase/2',3'‑cyclic phosphodiesterase/2' nucleotidase/phosphatase | |||||
| * | ? | NC_002947 | = 5594170 | 29 (0.650) | 7 (0.200) | 7/222 | 3.5 | 22.9% | intergenic (‑66/+79) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase |
| ? | NC_002947 | = 5594207 | 24 (0.670) | intergenic (‑103/+42) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase | |||||
| * | ? | NC_002947 | = 2472183 | 39 (0.870) | 7 (0.220) | 6/200 | 3.5 | 21.2% | intergenic (+44/+105) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947 | = 2472229 | 24 (0.740) | intergenic (+90/+59) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase | |||||
| * | ? | NC_002947 | = 3951141 | 19 (0.420) | 7 (0.200) | 6/222 | 3.8 | 29.1% | intergenic (‑61/+134) | PP_3486/PP_3487 | cytochrome c/hypothetical protein |
| ? | NC_002947 | = 3951201 | 19 (0.530) | intergenic (‑121/+74) | PP_3486/PP_3487 | cytochrome c/hypothetical protein | |||||
| * | ? | NC_002947 | 1487013 = | 18 (0.400) | 6 (0.170) | 6/218 | 3.8 | 32.3% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487103 = | 11 (0.310) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | 5291074 = | 66 (1.470) | 9 (0.200) | 8/272 | 3.9 | 12.4% | coding (624/882 nt) | PP_4664 | LysR family transcriptional regulator |
| ? | NC_002947 | 5291103 = | 62 (1.410) | coding (653/882 nt) | PP_4664 | LysR family transcriptional regulator | |||||
| * | ? | NC_002947 | 5162618 = | 26 (0.580) | 6 (0.160) | 6/226 | 3.9 | 24.4% | intergenic (+93/+108) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase |
| ? | NC_002947 | 5162702 = | 16 (0.440) | intergenic (+177/+24) | PP_4544/PP_4545 | hypothetical protein/beta‑ketodecanoyl‑ACP synthase | |||||