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 51 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 | 62.0% | 19.2 / 121.2 | 121 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 196,390 | 0 | T | C | 46.2% | 32.8 / 100.8 | 80 | D632D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,348,705 | 0 | A | G | 45.5% | 42.3 / 129.8 | 99 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 44.4% | 62.2 / 133.2 | 108 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 699,722 | 0 | A | G | 43.1% | 32.6 / 74.9 | 65 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 196,351 | 0 | C | G | 39.0% | 123.5 / 127.5 | 118 | T619T (ACC→ACG) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 195,559 | 0 | C | A | 36.4% | 105.1 / 73.7 | 77 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,544,489 | 0 | C | A | 34.4% | 32.0 / 24.4 | 32 | intergenic (+48/+66) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 196,327 | 0 | A | C | 34.2% | 177.6 / 106.4 | 120 | T611T (ACA→ACC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 4,796,614 | 0 | G | C | 29.4% | 138.3 / 63.9 | 85 | intergenic (‑172/+46) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| * | NC_002947 | 5,988,889 | 0 | C | A | 29.1% | 167.7 / 53.6 | 79 | intergenic (+183/‑363) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 196,306 | 0 | T | C | 29.0% | 205.3 / 90.3 | 125 | N604N (AAT→AAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 1,544,501 | 0 | G | C | 28.6% | 56.4 / 23.5 | 35 | intergenic (+60/+54) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 5,988,895 | 0 | A | G | 28.4% | 147.9 / 57.0 | 81 | intergenic (+189/‑357) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 4,796,612 | 0 | C | T | 28.2% | 127.3 / 56.9 | 85 | intergenic (‑170/+48) | pvdH/PP_4224 | diaminobutyrate‑2‑oxoglutarate transaminase/sensor histidine kinase |
| * | NC_002947 | 5,740,467 | 0 | T | G | 27.9% | 75.8 / 36.2 | 62 | intergenic (+32/+39) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 5,988,905 | 0 | T | C | 27.8% | 126.7 / 49.7 | 72 | intergenic (+199/‑347) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA |
| * | NC_002947 | 702,764 | 0 | T | G | 27.1% | 140.2 / 55.3 | 70 | intergenic (+12/‑120) | PP_23SD/PP_5SD | 23S ribosomal RNA/5S ribosomal RNA |
| * | NC_002947 | 702,765 | 0 | A | T | 27.1% | 138.0 / 46.6 | 70 | intergenic (+13/‑119) | PP_23SD/PP_5SD | 23S ribosomal RNA/5S ribosomal RNA |
| * | NC_002947 | 702,766 | 0 | C | A | 27.1% | 135.9 / 49.6 | 70 | intergenic (+14/‑118) | PP_23SD/PP_5SD | 23S ribosomal RNA/5S ribosomal RNA |
| Marginal new junction evidence (lowest skew 10 of 585 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | = 1419549 | 36 (0.540) | 21 (0.320) | 17/264 | 4.3 | 33.8% | intergenic (‑38/+98) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419636 | 47 (0.730) | intergenic (‑125/+11) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 499202 | 22 (0.330) | 21 (0.340) | 16/252 | 4.3 | 38.3% | intergenic (+46/‑250) | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 499271 | 47 (0.760) | intergenic (+115/‑181) | uhpA/PP_0411 | two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 1487006 = | 47 (0.710) | 12 (0.230) | 11/210 | 4.7 | 25.7% | intergenic (+22/+108) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS |
| ? | NC_002947 | 1487096 = | 33 (0.640) | intergenic (+112/+18) | yhdZ/degS | amino acid ABC transporter ATP‑binding protein/serine endoprotease DegS | |||||
| * | ? | NC_002947 | = 5453138 | 2 (0.030) | 8 (0.190) +48 bp |
8/174 | 4.8 | 28.9% | intergenic (+151/‑204) | lnt/PP_4791 | apolipoprotein N‑acyltransferase/transposase |
| ? | NC_002947 | 5545626 = | 59 (0.890) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 5224500 = | 1 (0.020) | 8 (0.190) +48 bp |
8/174 | 4.8 | 29.3% | intergenic (‑204/+175) | PP_4603/PP_4604 | transposase/DMT superfamily permease |
| ? | NC_002947 | 5545626 = | 59 (0.890) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 4075618 = | 5 (0.080) | 8 (0.190) +48 bp |
8/174 | 4.8 | 28.0% | intergenic (‑204/+237) | PP_3586/tpx | transposase/2‑Cys peroxiredoxin |
| ? | NC_002947 | 5545626 = | 59 (0.890) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 3828180 = | 6 (0.090) | 8 (0.190) +48 bp |
8/174 | 4.8 | 27.6% | intergenic (‑204/+155) | PP_3381/PP_3382 | transposase/gluconate 2‑dehydrogenase cytochrome c subunit |
| ? | NC_002947 | 5545626 = | 59 (0.890) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | 2939258 = | 2 (0.030) | 8 (0.190) +48 bp |
8/174 | 4.8 | 28.9% | intergenic (‑204/+236) | PP_2570/PP_2572 | transposase/hypothetical protein |
| ? | NC_002947 | 5545626 = | 59 (0.890) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 1440124 | 4 (0.060) | 8 (0.190) +48 bp |
8/174 | 4.8 | 28.3% | intergenic (‑455/‑204) | yveA/PP_1260 | aspartate‑proton symporter/transposase |
| ? | NC_002947 | 5545626 = | 59 (0.890) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||
| * | ? | NC_002947 | = 1296609 | 8 (0.120) | 8 (0.190) +48 bp |
8/174 | 4.8 | 27.0% | intergenic (‑362/‑204) | nhaA‑I/PP_1133 | Na(+)/H(+) antiporter NhaA/transposase |
| ? | NC_002947 | 5545626 = | 59 (0.890) | intergenic (‑766/+111) | rpsF/rlmB | 30S ribosomal protein S6/23S rRNA (guanosine(2251)‑2'‑O)‑methyltransferase RlmB | |||||