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 47 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 | 52.2% | 11.2 / 119.6 | 92 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 52.1% | ‑5.5 / 91.9 | 72 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 45.7% | 52.1 / 135.9 | 105 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 39.4% | 113.7 / 137.5 | 138 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,988,911 | 0 | A | . | 36.7% | 207.4 / 138.6 | 98 | intergenic (+205/‑341) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,905 | 0 | T | C | 34.3% | 104.3 / 88.2 | 99 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,485,150 | 0 | A | G | 32.0% | 22.1 / 15.8 | 25 | intergenic (+56/‑91) | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase |
| * | NC_002947 | 5,988,894 | 0 | C | T | 31.9% | 122.2 / 71.7 | 91 | intergenic (+188/‑358) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,895 | 0 | A | G | 31.9% | 111.7 / 75.7 | 91 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,988,889 | 0 | C | A | 28.2% | 156.3 / 57.3 | 85 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 5,740,467 | 0 | T | G | 28.0% | 51.0 / 32.6 | 50 | intergenic (+32/+39) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 196,390 | 0 | T | C | 28.0% | 135.4 / 62.8 | 93 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,013,248 | 0 | A | T | 27.3% | 85.9 / 30.7 | 55 | intergenic (+76/+55) | prfC/potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| * | NC_002947 | 5,740,470 | 0 | A | T | 26.5% | 63.3 / 29.6 | 50 | intergenic (+35/+36) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 5,740,471 | 0 | A | T | 26.0% | 67.2 / 28.5 | 50 | intergenic (+36/+35) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 5,740,474 | 0 | C | A | 26.0% | 79.7 / 29.7 | 50 | intergenic (+39/+32) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 5,485,153 | 0 | A | G | 25.9% | 38.6 / 13.2 | 28 | intergenic (+59/‑88) | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase |
| * | NC_002947 | 5,485,159 | 0 | G | A | 25.9% | 37.9 / 12.7 | 28 | intergenic (+65/‑82) | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase |
| * | NC_002947 | 196,351 | 0 | C | G | 25.9% | 186.2 / 76.0 | 116 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,013,242 | 0 | G | C | 25.9% | 101.2 / 35.6 | 59 | intergenic (+70/+61) | prfC/potF‑I | peptide chain release factor 3/putrescine‑binding protein |
| Marginal new junction evidence (lowest skew 10 of 561 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 4586029 | 16 (0.220) | 28 (0.410) | 21/260 | 3.7 | 54.5% | intergenic (+112/+103) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase |
| ? | NC_002947 | = 4586109 | 32 (0.470) | intergenic (+192/+23) | PP_4061/PP_4063 | hypothetical protein/long‑chain fatty acid‑‑CoA ligase | |||||
| * | ? | NC_002947 | = 652782 | 69 (0.930) | 15 (0.240) | 13/242 | 5.4 | 33.3% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4808159 | 1 (0.020) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | = 5914184 | 76 (1.030) | 10 (0.170) | 10/226 | 6.0 | 14.2% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | = 5914224 | 60 (1.010) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | = 4647595 | 39 (0.530) | 8 (0.150) | 7/204 | 6.7 | 21.0% | intergenic (+48/+83) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | = 4647625 | 32 (0.600) | intergenic (+78/+53) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | = 401687 | 54 (0.730) | 11 (0.200) +38 bp |
7/206 | 6.7 | 24.5% | intergenic (+214/+215) | PP_0334/PP_0335 | transposase/glutathione S‑transferase family protein |
| ? | NC_002947 | = 5033230 | 39 (0.530) | intergenic (+395/‑15) | PP_4435/PP_4437 | hypothetical protein/transposase | |||||
| * | ? | NC_002947 | = 401687 | 54 (0.730) | 11 (0.200) +38 bp |
7/206 | 6.7 | 26.2% | intergenic (+214/+215) | PP_0334/PP_0335 | transposase/glutathione S‑transferase family protein |
| ? | NC_002947 | = 4486381 | 31 (0.420) | intergenic (+82/‑15) | PP_3978/PP_3979 | hypothetical protein/transposase | |||||
| * | ? | NC_002947 | = 401687 | 54 (0.730) | 11 (0.200) +38 bp |
7/206 | 6.7 | 19.5% | intergenic (+214/+215) | PP_0334/PP_0335 | transposase/glutathione S‑transferase family protein |
| ? | NC_002947 | 4476266 = | 71 (0.960) | intergenic (‑15/‑161) | PP_3966/PP_3967 | transposase/MutT/nudix family protein | |||||
| * | ? | NC_002947 | = 401687 | 54 (0.730) | 11 (0.200) +38 bp |
7/206 | 6.7 | 29.0% | intergenic (+214/+215) | PP_0334/PP_0335 | transposase/glutathione S‑transferase family protein |
| ? | NC_002947 | = 3969351 | 20 (0.270) | intergenic (+300/‑15) | PP_3498/PP_3499 | transposase/transposase | |||||
| * | ? | NC_002947 | 1731163 = | 47 (0.640) | 13 (0.220) | 8/226 | 6.8 | 25.6% | intergenic (‑76/+115) | dapE/PP_1526 | succinyl‑diaminopimelate desuccinylase/beta‑(1‑3)‑glucosyl transferase |
| ? | NC_002947 | 1731255 = | 38 (0.640) | intergenic (‑168/+23) | dapE/PP_1526 | succinyl‑diaminopimelate desuccinylase/beta‑(1‑3)‑glucosyl transferase | |||||
| * | ? | NC_002947 | 278743 = | 56 (0.760) | 14 (0.210) | 10/254 | 6.8 | 22.1% | intergenic (‑238/+76) | PP_0224/sctC | DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein |
| ? | NC_002947 | 278794 = | 48 (0.720) | intergenic (‑289/+25) | PP_0224/sctC | DszC family monooxygenase/sulfur compound ABC transporter ATP‑binding protein | |||||