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 53 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,741,275 | 0 | A | G | 71.4% | 34.7 / 15.8 | 29 | intergenic (+466/+286) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,273 | 1 | . | C | 69.0% | 63.8 / 29.0 | 29 | intergenic (+464/+288) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,299 | 0 | C | T | 65.6% | 18.8 / 25.9 | 32 | intergenic (+490/+262) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,301 | 0 | A | C | 65.6% | 21.1 / 25.7 | 32 | intergenic (+492/+260) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,304 | 0 | C | G | 65.6% | 19.1 / 32.9 | 32 | intergenic (+495/+257) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,305 | 0 | A | C | 65.6% | 57.7 / 40.7 | 32 | intergenic (+496/+256) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,348,749 | 0 | A | G | 63.0% | 48.3 / 74.6 | 82 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 1,327,127 | 0 | C | T | 60.5% | 14.5 / 88.4 | 86 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 46.5% | 47.7 / 166.9 | 130 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 699,725 | 0 | A | G | 41.3% | 20.4 / 46.8 | 46 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,842,949 | 1 | . | G | 39.3% | 49.4 / 100.9 | 56 | intergenic (+48/‑249) | ccoP‑II/PP_4259 | cbb3‑type cytochrome c oxidase subunit/iron‑sulfur cluster‑binding protein |
| * | NC_002947 | 5,655,682 | 0 | T | G | 38.1% | 30.7 / 41.9 | 42 | intergenic (‑86/+66) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,687 | 0 | C | A | 38.1% | 51.0 / 32.8 | 43 | intergenic (‑91/+61) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 5,655,692 | 0 | T | . | 36.1% | 68.4 / 43.2 | 38 | intergenic (‑96/+56) | epd/tktA | D‑erythrose 4‑phosphate dehydrogenase/transketolase A |
| * | NC_002947 | 4,900,119 | 0 | C | T | 34.8% | 65.2 / 60.4 | 69 | intergenic (+35/‑463) | PP_4308/PP_4309 | AsnC family transcriptional regulator/NCS1 family transporter |
| * | NC_002947 | 4,741,298 | 1 | . | T | 34.4% | 25.6 / 49.2 | 32 | intergenic (+489/+263) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,741,302 | 0 | A | G | 34.4% | 23.9 / 25.4 | 32 | intergenic (+493/+259) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | NC_002947 | 4,900,114 | 0 | G | A | 34.3% | 72.9 / 61.0 | 71 | intergenic (+30/‑468) | PP_4308/PP_4309 | AsnC family transcriptional regulator/NCS1 family transporter |
| * | NC_002947 | 4,900,110 | 0 | A | G | 34.2% | 82.1 / 63.0 | 73 | intergenic (+26/‑472) | PP_4308/PP_4309 | AsnC family transcriptional regulator/NCS1 family transporter |
| * | NC_002947 | 196,351 | 0 | C | G | 34.0% | 162.8 / 98.7 | 103 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| Marginal new junction evidence (lowest skew 10 of 460 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 5594143 = | 61 (1.050) | 13 (0.280) | 11/208 | 3.0 | 20.5% | intergenic (‑39/+106) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase |
| ? | NC_002947 | 5594236 = | 53 (1.160) | intergenic (‑132/+13) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase | |||||
| * | ? | NC_002947 | = 5734113 | 70 (1.200) | 16 (0.310) | 12/234 | 3.2 | 20.4% | intergenic (‑83/+74) | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase |
| ? | NC_002947 | = 5734136 | 63 (1.220) | intergenic (‑106/+51) | proY/hutH | proline (histidine) APC transporter/histidine ammonia‑lyase | |||||
| * | ? | NC_002947 | 4586063 = | 10 (0.170) | 10 (0.240) | 9/188 | 3.2 | 40.7% | intergenic (+102/+115) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | 4586167 = | 22 (0.530) | intergenic (+206/+11) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 1487013 = | 44 (0.750) | 11 (0.240) | 10/204 | 3.2 | 27.5% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487103 = | 24 (0.530) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | = 528049 | 15 (0.260) | 16 (0.290) | 13/250 | 3.3 | 53.0% | noncoding (1284/2902 nt) | PP_23SC | 23S ribosomal RNA |
| ? | NC_002947 | = 701118 | NA (NA) | noncoding (1265/2902 nt) | PP_23SD | 23S ribosomal RNA | |||||
| * | ? | NC_002947 | = 174474 | NA (NA) | 16 (0.290) | 13/250 | 3.3 | NA | noncoding (1272/2902 nt) | PP_23SA | 23S ribosomal RNA |
| ? | NC_002947 | = 174479 | NA (NA) | noncoding (1277/2902 nt) | PP_23SA | 23S ribosomal RNA | |||||
| * | ? | NC_002947 | = 4852498 | 34 (0.580) | 9 (0.220) | 8/182 | 3.4 | 29.8% | intergenic (‑124/+173) | recR/ybaB | recombination protein RecR/nucleoid‑associated broad specificity regulator |
| ? | NC_002947 | = 4852557 | 19 (0.470) | intergenic (‑183/+114) | recR/ybaB | recombination protein RecR/nucleoid‑associated broad specificity regulator | |||||
| * | ? | NC_002947 | = 1419584 | 38 (0.650) | 9 (0.200) | 9/200 | 3.4 | 30.1% | intergenic (‑67/+70) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419614 | 13 (0.290) | intergenic (‑97/+40) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 6060487 = | 94 (1.610) | 11 (0.210) | 11/236 | 3.5 | 12.5% | intergenic (+67/+114) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein |
| ? | NC_002947 | 6060574 = | 70 (1.340) | intergenic (+154/+27) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 5560797 | 96 (1.650) | 13 (0.250) | 11/238 | 3.5 | 13.8% | intergenic (‑250/+52) | hisZ/hflC | ATP phosphoribosyltransferase regulatory subunit/integral membrane ATP‑dependent zinc metallopeptidase |
| ? | NC_002947 | = 5560808 | 76 (1.450) | intergenic (‑261/+41) | hisZ/hflC | ATP phosphoribosyltransferase regulatory subunit/integral membrane ATP‑dependent zinc metallopeptidase | |||||