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 | ||
| * | CP000730 | 512,643 | 0 | A | G | 51.9% | 0.6 / 70.0 | 52 | intergenic (+711/‑150) | recR/rrs1 | recombination protein RecR/16S ribosomal RNA |
| * | CP000730 | 111,512 | 0 | A | G | 37.5% | 36.2 / 37.9 | 40 | S194S (TCA→TCG) | USA300HOU_0110 | possible staphylococcal tandem lipoprotein |
| * | CP000730 | 111,516 | 0 | C | A | 37.5% | 57.6 / 39.4 | 40 | Q196K (CAA→AAA) | USA300HOU_0110 | possible staphylococcal tandem lipoprotein |
| * | CP000730 | 2,680,123 | 0 | A | T | 35.7% | 9.4 / 10.7 | 14 | intergenic (+175/+357) | cbpD/USA300HOU_2537 | possible secretory antigen/hypothetical protein |
| * | CP000730 | 2,680,166 | 0 | T | C | 28.6% | 24.9 / 11.0 | 21 | intergenic (+218/+314) | cbpD/USA300HOU_2537 | possible secretory antigen/hypothetical protein |
| * | CP000730 | 217,036 | 0 | T | A | 25.9% | 47.6 / 16.8 | 27 | intergenic (‑203/+23) | argD/brnQ | ornithine‑‑oxo‑acid transaminase/possible LIVCS family branched chain amino acid:cation symporter |
| * | CP000730 | 110,660 | 0 | T | A | 22.6% | 73.3 / 13.7 | 31 | I173I (ATT→ATA) | USA300HOU_0109 | staphylococcal tandem lipoprotein |
| * | CP000730 | 2,680,185 | 1 | . | T | 21.1% | 45.0 / 12.7 | 19 | intergenic (+237/+295) | cbpD/USA300HOU_2537 | possible secretory antigen/hypothetical protein |
| * | CP000730 | 598,486 | 0 | T | C | 20.0% | 55.9 / 10.7 | 30 | intergenic (+35/+247) | tufA/yhaA | elongation factor EF1A/M20D subfamily peptidase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP000730 | 913777 = | 31 (1.070) | 4 (0.150) | 4/248 | 3.3 | 12.5% | coding (1202/1308 nt) | sufD | ABC superfamily ATP binding cassette transporter, membrane protein |
| ? | CP000730 | 913839 = | 27 (0.990) | coding (1264/1308 nt) | sufD | ABC superfamily ATP binding cassette transporter, membrane protein | |||||
| * | ? | CP000730 | 143695 = | 28 (0.970) | 4 (0.140) | 4/252 | 3.4 | 11.6% | coding (91/1203 nt) | lysA1 | diaminopimelate decarboxylase |
| ? | CP000730 | 143740 = | 34 (1.230) | coding (136/1203 nt) | lysA1 | diaminopimelate decarboxylase | |||||
| * | ? | CP000730 | 1410425 = | 29 (1.000) | 3 (0.110) | 3/246 | 3.7 | 10.2% | coding (483/729 nt) | trpA | tryptophan synthase alpha subunit |
| ? | CP000730 | 1410516 = | 26 (0.960) | coding (574/729 nt) | trpA | tryptophan synthase alpha subunit | |||||
| * | ? | CP000730 | = 885899 | 22 (0.760) | 3 (0.110) | 3/244 | 3.7 | 13.2% | coding (163/618 nt) | yisU | LysE family L‑lysine exporter |
| ? | CP000730 | = 885930 | 19 (0.710) | coding (132/618 nt) | yisU | LysE family L‑lysine exporter | |||||
| * | ? | CP000730 | 2802428 = | 45 (1.550) | 4 (0.150) | 3/248 | 3.8 | 9.0% | coding (1288/1509 nt) | gtf1 | possible glycosyltransferase |
| ? | CP000730 | 2802503 = | 39 (1.430) | coding (1213/1509 nt) | gtf1 | possible glycosyltransferase | |||||
| * | ? | CP000730 | 900736 = | 24 (0.830) | 3 (0.110) | 3/248 | 3.8 | 10.8% | coding (108/384 nt) | USA300HOU_0859 | hypothetical protein |
| ? | CP000730 | 900761 = | 27 (0.990) | coding (133/384 nt) | USA300HOU_0859 | hypothetical protein | |||||
| * | ? | CP000730 | = 452719 | 28 (0.970) | 3 (0.110) | 3/248 | 3.8 | 10.1% | coding (573/696 nt) | set21 | staphylococcal exotoxin |
| ? | CP000730 | = 452762 | 27 (0.990) | coding (616/696 nt) | set21 | staphylococcal exotoxin | |||||