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 | 1,327,121 | 0 | C | T | 51.3% | 17.4 / 101.4 | 74 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 699,722 | 0 | A | G | 50.9% | ‑2.7 / 69.8 | 53 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 4,348,705 | 0 | A | G | 42.6% | 42.2 / 79.7 | 68 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 524,167 | 0 | A | G | 41.7% | 11.4 / 15.7 | 25 | intergenic (+34/‑782) | tyrS/PP_16SC | tyrosine‑‑tRNA ligase/16S ribosomal RNA |
| * | NC_002947 | 195,634 | 0 | C | T | 38.1% | 33.8 / 38.8 | 44 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,351 | 0 | C | G | 32.6% | 47.0 / 33.8 | 43 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,740,467 | 0 | T | G | 32.3% | 21.2 / 13.4 | 32 | intergenic (+32/+39) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 196,327 | 0 | A | C | 31.7% | 37.1 / 32.8 | 41 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,390 | 0 | T | C | 30.6% | 40.2 / 25.2 | 38 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,559 | 0 | C | A | 25.7% | 54.2 / 19.1 | 35 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 196,306 | 0 | T | C | 23.3% | 65.9 / 20.5 | 44 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,751,079 | 0 | T | G | 20.0% | 58.6 / 11.9 | 36 | P146P (CCT→CCG) | PP_1551 | replication protein O |
| * | NC_002947 | 5,997,189 | 1 | . | G | 20.0% | 42.5 / 13.2 | 20 | intergenic (‑158/+42) | PP_5252/PP_5253 | hypothetical protein/arylesterase |
| Marginal new junction evidence (lowest skew 10 of 127 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 5681415 | 2 (0.060) | 9 (0.270) +CGGG |
8/282 | 3.1 | 82.2% | intergenic (‑133/+71) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein |
| ? | NC_002947 | 5681416 = | 2 (0.060) | intergenic (‑134/+70) | PP_4986/PP_4987 | hemolysin III family channel protein/putative Chemotaxis protein | |||||
| * | ? | NC_002947 | 4808174 = | 0 (0.000) | 5 (0.170) | 5/238 | 3.5 | 47.6% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 5988779 = | 11 (0.380) | intergenic (+73/‑473) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | 5914157 = | 26 (0.750) | 4 (0.140) | 4/234 | 3.9 | 18.2% | intergenic (+49/+104) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | 5914253 = | 15 (0.530) | intergenic (+145/+8) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | 4647557 = | 23 (0.660) | 3 (0.120) | 3/212 | 4.0 | 15.5% | intergenic (+10/+121) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | 4647665 = | 16 (0.630) | intergenic (+118/+13) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | = 5669426 | 51 (1.460) | 4 (0.130) | 4/262 | 4.3 | 7.9% | intergenic (+27/‑98) | ahcY/metF | adenosylhomocysteinase/5,10‑methylenetetrahydrofolate reductase |
| ? | NC_002947 | = 5669447 | 47 (1.490) | intergenic (+48/‑77) | ahcY/metF | adenosylhomocysteinase/5,10‑methylenetetrahydrofolate reductase | |||||
| * | ? | NC_002947 | 2085774 = | 35 (1.000) | 9 (0.280) +CTTACGGCGAGTC |
4/264 | 4.3 | 22.0% | intergenic (+483/‑112) | PP_1864/PP_1865 | hypothetical protein/transposase |
| ? | NC_002947 | 2413006 = | NA (NA) | intergenic (+270/‑151) | rlmM/PP_2114 | 23S rRNA (cytidine(2498)‑2'‑O)‑methyltransferase RlmM/transposase | |||||
| * | ? | NC_002947 | 1487006 = | 23 (0.660) | 4 (0.140) | 3/230 | 4.3 | 18.1% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487096 = | 18 (0.650) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | = 2433431 | 30 (0.860) | 4 (0.120) | 4/272 | 4.4 | 13.1% | coding (1303/1929 nt) | uup | ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 2433456 | 25 (0.760) | coding (1328/1929 nt) | uup | ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 5876984 = | 24 (0.690) | 5 (0.170) | 3/242 | 4.5 | 21.7% | intergenic (+6/+99) | rpiA/PP_5151 | ribose‑5‑phosphate isomerase A/hypothetical protein |
| ? | NC_002947 | 5877066 = | 16 (0.550) | intergenic (+88/+17) | rpiA/PP_5151 | ribose‑5‑phosphate isomerase A/hypothetical protein | |||||
| * | ? | NC_002947 | = 5671638 | 25 (0.720) | 3 (0.100) | 3/242 | 4.5 | 15.4% | intergenic (+57/‑113) | PP_4978/PP_4979 | hypothetical protein/substrate‑binding protein |
| ? | NC_002947 | = 5671675 | 12 (0.410) | intergenic (+94/‑76) | PP_4978/PP_4979 | hypothetical protein/substrate‑binding protein | |||||