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 22 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 2,679,725 | 0 | G | A | 79.8% | 167.8 / 38.0 | 79 | W70* (TGG→TAG) | cbpD | possible secretory antigen |
| * | CP000730 | 665,392 | 0 | T | G | 79.5% | 205.1 / 39.9 | 79 | L79* (TTA→TGA) | iolS | possible acetytransferase |
| * | CP000730 | 1,963,768 | 0 | C | G | 78.4% | 224.7 / 55.1 | 88 | V365L (GTA→CTA) | hemG | protoporphyrinogen oxidase |
| * | CP000730 | 707,910 | 0 | A | G | 77.9% | 152.7 / 38.4 | 77 | intergenic (‑1/‑121) | mntB/sirR | ABC superfamily ATP binding cassette transporter, ABC protein/possible metal‑dependent transcriptional regulator |
| * | CP000730 | 2,028,269 | 0 | G | C | 76.7% | 189.7 / 63.3 | 87 | P126A (CCA→GCA) | yvqF | hypothetical membrane protein |
| * | CP000730 | 1,761,889 | 0 | C | A | 75.4% | 110.8 / 45.0 | 66 | D388Y (GAT→TAT) | folC | tetrahydrofolate synthase |
| * | CP000730 | 1,909,486 | 1 | . | T | 75.4% | 171.1 / 58.1 | 65 | coding (293/303 nt) | USA300HOU_1771 | hypothetical membrane protein |
| * | CP000730 | 2,405,489 | 0 | G | T | 73.2% | 164.9 / 79.6 | 111 | intergenic (‑127/‑124) | USA300HOU_2268/ureA | UT family urea transporter/urease gamma subunit |
| * | CP000730 | 9,085 | 0 | G | A | 72.8% | 145.5 / 68.6 | 92 | R685H (CGT→CAT) | gyrA | DNA topoisomerase (ATP‑hydrolyzing) subunit A |
| * | CP000730 | 2,352,815 | 0 | G | A | 71.6% | 138.6 / 62.1 | 88 | A92V (GCA→GTA) | rpsI | ribosomal protein S9 |
| * | CP000730 | 1,233,504 | 0 | T | A | 71.3% | 139.8 / 68.8 | 87 | V470D (GTT→GAT) | prkC | non‑specific serine/threonine protein kinase |
| * | CP000730 | 18,890 | 0 | C | G | 68.5% | 117.9 / 75.2 | 75 | N182K (AAC→AAG) | yybT | DHH subfamily phosphodiesterase |
| * | CP000730 | 512,643 | 0 | A | G | 51.1% | 10.8 / 275.1 | 188 | intergenic (+711/‑150) | recR/rrs1 | recombination protein RecR/16S ribosomal RNA |
| * | CP000730 | 111,516 | 0 | C | A | 44.7% | 85.8 / 149.5 | 123 | Q196K (CAA→AAA) | USA300HOU_0110 | possible staphylococcal tandem lipoprotein |
| * | CP000730 | 111,512 | 0 | A | G | 43.5% | 64.6 / 151.9 | 125 | S194S (TCA→TCG) | USA300HOU_0110 | possible staphylococcal tandem lipoprotein |
| * | CP000730 | 479,553 | 0 | G | A | 24.4% | 146.5 / 47.5 | 78 | A194T (GCA→ACA) | USA300HOU_0458 | hypothetical protein |
| * | CP000730 | 367,644 | 0 | G | T | 23.8% | 255.2 / 56.4 | 105 | intergenic (‑96/‑20) | nanA/nagC | N‑acetylneuraminate lyase/possible transcriptional regulator |
| * | CP000730 | 707,879 | 0 | A | T | 23.0% | 154.2 / 48.0 | 74 | L11I (TTA→ATA) | mntB | ABC superfamily ATP binding cassette transporter, ABC protein |
| * | CP000730 | 1,797,772 | 0 | G | C | 22.4% | 187.5 / 47.9 | 76 | R7G (CGC→GGC) | phoR | sensor histidine kinase |
| * | CP000730 | 1,419,527 | 0 | G | T | 21.8% | 199.9 / 42.6 | 87 | P7T (CCT→ACT) | USA300HOU_1317 | hypothetical membrane protein |
| Marginal new junction evidence (lowest skew 10 of 54 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | = 2031785 | 95 (1.080) | 4 (0.080) +59 bp |
3/160 | 10.2 | 7.7% | coding (51/291 nt) | USA300HOU_1886 | hypothetical protein |
| ? | CP000730 | = 2866882 | 72 (0.820) | intergenic (‑281/+172) | USA300HOU_2711/noc | hypothetical membrane protein/possible transcriptional regulator | |||||
| * | ? | CP000730 | = 2031785 | 95 (1.080) | 4 (0.080) +59 bp |
3/160 | 10.2 | 6.8% | coding (51/291 nt) | USA300HOU_1886 | hypothetical protein |
| ? | CP000730 | = 2031834 | 96 (1.090) | coding (2/291 nt) | USA300HOU_1886 | hypothetical protein | |||||
| * | ? | CP000730 | = 1470058 | 100 (1.130) | 4 (0.080) +59 bp |
3/160 | 10.2 | 6.7% | intergenic (‑105/‑240) | USA300HOU_1370/rnhA | hypothetical protein/possible ribonuclease H |
| ? | CP000730 | = 2031785 | 95 (1.080) | coding (51/291 nt) | USA300HOU_1886 | hypothetical protein | |||||
| * | ? | CP000730 | 1380507 = | 75 (0.850) | 4 (0.080) +59 bp |
3/160 | 10.2 | 7.6% | intergenic (+2604/‑571) | sbcC/acnA | exodeoxyribonuclease SbcC/aconitate hydratase |
| ? | CP000730 | = 2031785 | 95 (1.080) | coding (51/291 nt) | USA300HOU_1886 | hypothetical protein | |||||
| * | ? | CP000730 | = 1098235 | 85 (0.960) | 4 (0.080) +59 bp |
3/160 | 10.2 | 7.2% | intergenic (+214/+135) | ktrC/rnjA | possible Trk family potassium (K+) transporter, NAD+ binding protein/metallo‑beta‑lactamase |
| ? | CP000730 | = 2031785 | 95 (1.080) | coding (51/291 nt) | USA300HOU_1886 | hypothetical protein | |||||
| * | ? | CP000730 | = 891847 | 80 (0.910) | 4 (0.080) +59 bp |
3/160 | 10.2 | 7.4% | coding (61/147 nt) | USA300HOU_0844 | hypothetical protein |
| ? | CP000730 | = 2031785 | 95 (1.080) | coding (51/291 nt) | USA300HOU_1886 | hypothetical protein | |||||
| * | ? | CP000730 | = 801037 | 76 (0.860) | 4 (0.080) +59 bp |
3/160 | 10.2 | 7.5% | intergenic (+171/‑180) | hisC1/USA300HOU_0748 | histidinol‑phosphate transaminase/hypothetical protein |
| ? | CP000730 | = 2031785 | 95 (1.080) | coding (51/291 nt) | USA300HOU_1886 | hypothetical protein | |||||
| * | ? | CP000730 | = 800977 | 85 (0.960) | 4 (0.080) +59 bp |
3/160 | 10.2 | 8.1% | intergenic (+111/‑240) | hisC1/USA300HOU_0748 | histidinol‑phosphate transaminase/hypothetical protein |
| ? | CP000730 | = 2866882 | 72 (0.820) | intergenic (‑281/+172) | USA300HOU_2711/noc | hypothetical membrane protein/possible transcriptional regulator | |||||
| * | ? | CP000730 | = 800977 | 85 (0.960) | 4 (0.080) +59 bp |
3/160 | 10.2 | 7.1% | intergenic (+111/‑240) | hisC1/USA300HOU_0748 | histidinol‑phosphate transaminase/hypothetical protein |
| ? | CP000730 | = 2031834 | 96 (1.090) | coding (2/291 nt) | USA300HOU_1886 | hypothetical protein | |||||
| * | ? | CP000730 | = 800977 | 85 (0.960) | 4 (0.080) +59 bp |
3/160 | 10.2 | 7.0% | intergenic (+111/‑240) | hisC1/USA300HOU_0748 | histidinol‑phosphate transaminase/hypothetical protein |
| ? | CP000730 | = 1470058 | 100 (1.130) | intergenic (‑105/‑240) | USA300HOU_1370/rnhA | hypothetical protein/possible ribonuclease H | |||||