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 36 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,586,056 | 1 | . | C | 67.7% | 68.9 / 32.5 | 31 | intergenic (+139/+76) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| * | NC_002947 | 1,327,121 | 0 | C | T | 62.2% | 25.1 / 95.1 | 98 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 4,337,146 | 0 | G | . | 59.3% | 40.8 / 176.6 | 91 | coding (69/885 nt) | PP_3811 | LysR family transcriptional regulator |
| * | NC_002947 | 4,348,705 | 0 | A | G | 53.8% | ‑1.0 / 99.5 | 80 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 50.0% | 3.2 / 115.4 | 85 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 699,722 | 0 | A | G | 48.8% | 3.9 / 105.4 | 80 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 195,559 | 0 | C | A | 40.4% | 59.4 / 56.6 | 57 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,351 | 0 | C | G | 32.7% | 138.9 / 88.9 | 104 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,390 | 0 | T | C | 32.3% | 108.2 / 74.1 | 93 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,586,057 | 1 | . | C | 32.3% | 29.4 / 42.8 | 31 | intergenic (+140/+75) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| * | NC_002947 | 196,327 | 0 | A | C | 30.1% | 175.9 / 89.9 | 113 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 649,541 | 0 | C | T | 29.4% | 69.4 / 32.4 | 51 | G46D (GGC→GAC) | accC | acetyl‑CoA carboxylase biotin carboxylase subunit |
| * | NC_002947 | 5,740,467 | 0 | T | G | 26.9% | 29.4 / 12.2 | 26 | intergenic (+32/+39) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 2,282,770 | 0 | T | G | 26.8% | 89.5 / 57.8 | 83 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 196,306 | 0 | T | C | 26.4% | 217.1 / 82.8 | 129 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,340,089 | 0 | G | C | 25.8% | 48.7 / 12.9 | 31 | intergenic (+74/‑257) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 196,879 | 0 | G | A | 25.0% | 46.7 / 14.0 | 33 | V795V (GTG→GTA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,779 | 0 | C | A | 25.0% | 121.9 / 44.7 | 78 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 4,340,090 | 0 | A | T | 25.0% | 46.9 / 13.2 | 31 | intergenic (+75/‑256) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 2,282,774 | 0 | G | C | 24.4% | 134.6 / 48.5 | 80 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 389 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 4808174 = | 4 (0.060) | 24 (0.480) | 15/214 | 3.2 | 51.1% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 43 (0.860) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808179 | 5 (0.080) | 18 (0.300) | 16/260 | 4.0 | 35.8% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988765 = | 60 (0.990) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 1419549 | 15 (0.230) | 21 (0.320) | 15/278 | 4.6 | 49.0% | intergenic (‑38/+98) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419636 | 29 (0.450) | intergenic (‑125/+11) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 5545321 = | NA (NA) | 13 (0.200) | 13/280 | 5.2 | 21.6% | intergenic (‑461/+416) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| ? | NC_002947 | = 5621245 | 48 (0.720) | coding (19/774 nt) | PP_4939 | hypothetical protein | |||||
| * | ? | NC_002947 | = 5545666 | NA (NA) | 11 (0.170) | 11/278 | 5.8 | 18.7% | intergenic (‑806/+71) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB |
| ? | NC_002947 | 5621244 = | 49 (0.740) | coding (20/774 nt) | PP_4939 | hypothetical protein | |||||
| * | ? | NC_002947 | = 4808179 | 5 (0.080) | 22 (0.390) | 9/244 | 5.8 | 44.3% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988949 | 51 (0.900) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 1499507 = | 25 (0.380) | 16 (0.250) +GCG |
11/278 | 5.8 | 27.8% | intergenic (+84/‑80) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| ? | NC_002947 | = 5594166 | 60 (0.900) | intergenic (‑113/+32) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase | |||||
| * | ? | NC_002947 | 336206 = | 35 (0.530) | 9 (0.170) | 8/230 | 5.9 | 22.4% | intergenic (+54/+339) | PP_0278/PP_0279 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | 336326 = | 34 (0.630) | intergenic (+174/+219) | PP_0278/PP_0279 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | 5594092 = | 47 (0.710) | 6 (0.110) | 6/228 | 6.7 | 11.8% | intergenic (‑39/+106) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase |
| ? | NC_002947 | 5594185 = | 52 (0.980) | intergenic (‑132/+13) | PP_4921/thiC | NCS1 family transporter/phosphomethylpyrimidine synthase | |||||
| * | ? | NC_002947 | = 2472140 | 57 (0.860) | 7 (0.150) | 5/206 | 6.7 | 13.8% | intergenic (+44/+105) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase |
| ? | NC_002947 | = 2472186 | 46 (0.960) | intergenic (+90/+59) | PP_2166/PP_2167 | anti‑anti‑sigma factor/PhoD‑like phosphatase | |||||