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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,126,645 | 1 | . | C | 71.4% | 27.4 / 10.0 | 14 | intergenic (‑99/+50) | tdcG‑II/gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| * | NC_002947 | 699,722 | 0 | A | G | 57.6% | 19.1 / 65.7 | 60 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,121 | 0 | C | T | 53.6% | 14.2 / 109.8 | 85 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 44.2% | 19.9 / 63.6 | 52 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 196,351 | 0 | C | G | 34.0% | 77.9 / 34.6 | 53 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,634 | 0 | C | T | 33.3% | 37.8 / 19.1 | 32 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 702,764 | 0 | T | G | 27.5% | 78.4 / 28.5 | 40 | intergenic (+12/‑120) | PP_23SD/PP_5SD | 23S ribosomal RNA/5S ribosomal RNA |
| * | NC_002947 | 702,765 | 0 | A | T | 27.5% | 78.0 / 24.2 | 40 | intergenic (+13/‑119) | PP_23SD/PP_5SD | 23S ribosomal RNA/5S ribosomal RNA |
| * | NC_002947 | 702,766 | 0 | C | A | 27.5% | 77.7 / 28.0 | 40 | intergenic (+14/‑118) | PP_23SD/PP_5SD | 23S ribosomal RNA/5S ribosomal RNA |
| * | NC_002947 | 5,988,911 | 0 | A | . | 26.1% | 52.8 / 16.9 | 24 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,905 | 0 | T | C | 25.9% | 40.5 / 12.9 | 27 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,390 | 0 | T | C | 25.7% | 58.1 / 15.6 | 36 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,327 | 0 | A | C | 25.0% | 95.8 / 29.3 | 54 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,894 | 0 | C | T | 25.0% | 44.6 / 13.6 | 28 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 25.0% | 44.7 / 13.0 | 28 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 197,590 | 0 | T | C | 23.9% | 78.7 / 23.9 | 47 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,572 | 0 | G | A | 22.7% | 74.9 / 19.7 | 44 | K1026K (AAG→AAA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,478,849 | 0 | T | G | 21.4% | 85.4 / 16.4 | 42 | intergenic (+102/+343) | PP_2172/PP_2173 | hypothetical protein/AraC family transcriptional regulator |
| * | NC_002947 | 196,306 | 0 | T | C | 21.1% | 115.4 / 24.5 | 57 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,703,252 | 0 | C | T | 20.6% | 62.1 / 10.3 | 34 | intergenic (+101/‑66) | lysS/PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| Marginal new junction evidence (lowest skew 10 of 182 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 2837075 | 9 (0.260) | 6 (0.190) | 6/266 | 3.2 | 51.6% | intergenic (‑27/+156) | sad‑I/PP_2489 | NAD+‑dependent succinate semialdehyde dehydrogenase/xenobiotic reductase |
| ? | NC_002947 | 2837172 = | 3 (0.100) | intergenic (‑124/+59) | sad‑I/PP_2489 | NAD+‑dependent succinate semialdehyde dehydrogenase/xenobiotic reductase | |||||
| * | ? | NC_002947 | 295681 = | 32 (0.930) | 6 (0.180) | 6/286 | 3.5 | 18.0% | intergenic (+29/+113) | PP_0241/PP_0242 | transporter/TetR family transcriptional regulator |
| ? | NC_002947 | 295776 = | 23 (0.680) | intergenic (+124/+18) | PP_0241/PP_0242 | transporter/TetR family transcriptional regulator | |||||
| * | ? | NC_002947 | 4817600 = | 29 (0.850) | 5 (0.150) | 5/276 | 3.7 | 15.2% | coding (296/795 nt) | PP_4242 | conserved protein of unknown function with Rhs repeat‑associated core domain |
| ? | NC_002947 | 4817630 = | 28 (0.860) | coding (326/795 nt) | PP_4242 | conserved protein of unknown function with Rhs repeat‑associated core domain | |||||
| * | ? | NC_002947 | 3947414 = | 27 (0.790) | 6 (0.190) | 5/272 | 3.7 | 17.3% | coding (635/1797 nt) | PP_3483 | type II secretion system protein |
| ? | NC_002947 | 3947505 = | 32 (1.000) | coding (544/1797 nt) | PP_3483 | type II secretion system protein | |||||
| * | ? | NC_002947 | = 715313 | 44 (1.290) | 5 (0.150) | 5/278 | 3.7 | 10.7% | coding (181/483 nt) | PP_0607 | type IV pili biogenesis protein FimT |
| ? | NC_002947 | = 715369 | 41 (1.250) | coding (125/483 nt) | PP_0607 | type IV pili biogenesis protein FimT | |||||
| * | ? | NC_002947 | = 706039 | 45 (1.310) | 6 (0.180) | 5/276 | 3.7 | 11.6% | coding (1516/2301 nt) | PP_0599 | paraquat‑inducible protein B |
| ? | NC_002947 | = 706055 | 49 (1.500) | coding (1532/2301 nt) | PP_0599 | paraquat‑inducible protein B | |||||
| * | ? | NC_002947 | = 5201567 | 20 (0.580) | 5 (0.150) | 5/284 | 3.8 | 27.3% | intergenic (‑53/‑127) | PP_4582/PP_4583 | membrane protein/putative Peptidase |
| ? | NC_002947 | 5201666 = | 7 (0.210) | intergenic (‑152/‑28) | PP_4582/PP_4583 | membrane protein/putative Peptidase | |||||
| * | ? | NC_002947 | = 4908303 | 7 (0.200) | 7 (0.210) | 5/284 | 3.8 | 50.5% | intergenic (‑279/‑3) | PP_4317/PP_4318 | hypothetical protein/transposase |
| ? | NC_002947 | = 4908336 | NA (NA) | coding (31/1302 nt) | PP_4318 | transposase | |||||
| * | ? | NC_002947 | = 2869425 | 1 (0.030) | 7 (0.210) | 5/284 | 3.8 | 63.7% | coding (34/1302 nt) | PP_2522 | transposase |
| ? | NC_002947 | = 4908300 | 7 (0.210) | intergenic (‑276/‑6) | PP_4317/PP_4318 | hypothetical protein/transposase | |||||
| * | ? | NC_002947 | = 2529274 | NA (NA) | 7 (0.210) | 5/284 | 3.8 | 87.7% | intergenic (+401/‑6) | PP_2217/PP_2218 | enoyl‑CoA hydratase/transposase |
| ? | NC_002947 | = 2869425 | 1 (0.030) | coding (34/1302 nt) | PP_2522 | transposase | |||||