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 63 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,327,121 | 0 | C | T | 56.8% | 3.0 / 114.0 | 95 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 55.0% | 8.4 / 68.3 | 60 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 52.0% | 3.9 / 94.7 | 73 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 196,351 | 0 | C | G | 40.3% | 72.9 / 95.4 | 77 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,634 | 0 | C | T | 37.1% | 108.1 / 111.6 | 116 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,340,081 | 0 | A | G | 35.7% | 21.1 / 22.9 | 28 | intergenic (+66/‑265) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 5,988,905 | 0 | T | C | 34.3% | 63.2 / 58.9 | 68 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,390 | 0 | T | C | 33.8% | 78.2 / 58.6 | 68 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,911 | 0 | A | . | 33.8% | 148.3 / 85.0 | 68 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,340,075 | 0 | A | T | 33.3% | 28.0 / 24.0 | 33 | intergenic (+60/‑271) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 4,340,076 | 0 | G | C | 33.3% | 29.3 / 25.5 | 30 | intergenic (+61/‑270) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 4,340,082 | 0 | C | T | 33.3% | 28.3 / 18.7 | 28 | intergenic (+67/‑264) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 4,340,089 | 0 | G | C | 32.3% | 32.8 / 24.5 | 31 | intergenic (+74/‑257) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 4,340,083 | 0 | A | G | 32.1% | 25.1 / 20.8 | 28 | intergenic (+68/‑263) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 4,340,084 | 0 | C | T | 32.1% | 33.8 / 17.4 | 28 | intergenic (+69/‑262) | ribAB‑II/PP_3814 | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/polyamine ABC transportersubstrate‑binding protein |
| * | NC_002947 | 5,988,894 | 0 | C | T | 31.8% | 80.6 / 47.8 | 64 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 2,282,770 | 0 | T | G | 31.3% | 71.4 / 59.1 | 67 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,774 | 0 | G | C | 31.3% | 87.0 / 56.5 | 68 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 1,013,242 | 0 | G | C | 31.1% | 62.4 / 36.2 | 46 | intergenic (+70/+61) | prfC/potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| * | NC_002947 | 2,282,775 | 0 | G | C | 30.9% | 91.8 / 55.2 | 68 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 347 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4808179 | 1 (0.020) | 24 (0.430) | 17/252 | 3.3 | 45.8% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988765 = | 56 (1.000) | intergenic (+59/‑487) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4586029 | 9 (0.150) | 22 (0.390) | 16/254 | 3.5 | 47.2% | intergenic (+112/+103) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586109 | 41 (0.720) | intergenic (+192/+23) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | 1731163 = | 65 (1.050) | 11 (0.220) | 9/220 | 4.8 | 16.2% | intergenic (‑76/+115) | dapE/PP_1526 | succinyl‑diaminopimelate desuccinylase/beta‑(1‑3)‑glucosyl transferase |
| ? | NC_002947 | 1731255 = | 62 (1.260) | intergenic (‑168/+23) | dapE/PP_1526 | succinyl‑diaminopimelate desuccinylase/beta‑(1‑3)‑glucosyl transferase | |||||
| * | ? | NC_002947 | = 4150041 | 45 (0.730) | 12 (0.220) | 10/240 | 4.9 | 23.5% | intergenic (+40/‑357) | PP_3654/PP_3655 | leucine‑responsive regulatory protein/cytosine/purine/uracil/thiamine/allantoin permease family protein |
| ? | NC_002947 | = 4150072 | 39 (0.730) | intergenic (+71/‑326) | PP_3654/PP_3655 | leucine‑responsive regulatory protein/cytosine/purine/uracil/thiamine/allantoin permease family protein | |||||
| * | ? | NC_002947 | 6060431 = | 60 (0.970) | 12 (0.220) | 10/248 | 5.1 | 17.0% | intergenic (+67/+114) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein |
| ? | NC_002947 | 6060518 = | 63 (1.140) | intergenic (+154/+27) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||
| * | ? | NC_002947 | 1487006 = | 63 (1.020) | 9 (0.190) | 7/216 | 5.5 | 15.4% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487096 = | 50 (1.040) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | = 4808179 | 1 (0.020) | 13 (0.250) | 8/236 | 5.6 | 34.3% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988949 | 49 (0.930) | intergenic (+243/‑303) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 4896378 = | 57 (0.920) | 8 (0.150) | 7/234 | 5.9 | 18.3% | intergenic (+11/‑197) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein |
| ? | NC_002947 | 4896467 = | 23 (0.440) | intergenic (+100/‑108) | PP_4304/sbp‑I | VIC family cation transporter/sulfate ABC transporter substrate‑binding protein | |||||
| * | ? | NC_002947 | = 5698743 | 52 (0.840) | 7 (0.130) | 7/242 | 6.1 | 15.1% | intergenic (+33/‑134) | hslU/PP_5002 | protease HslVU ATPase subunit/hypothetical protein |
| ? | NC_002947 | = 5698792 | 33 (0.610) | intergenic (+82/‑85) | hslU/PP_5002 | protease HslVU ATPase subunit/hypothetical protein | |||||
| * | ? | NC_002947 | 4537549 = | NA (NA) | 14 (0.240) | 8/266 | 6.2 | 70.8% | coding (884/1533 nt) | PP_4025 | transposase |
| ? | NC_002947 | = 4626656 | 6 (0.100) | coding (848/1533 nt) | PP_4091 | transposase | |||||