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 | ||
| * | USA300TCH1516_ALE | 512,643 | 0 | A | G | 52.1% | 12.5 / 286.8 | 194 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 34.7% | 150.7 / 110.7 | 124 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 33.6% | 197.8 / 105.3 | 123 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 23 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | = 802141 | 98 (1.090) | 6 (0.070) | 6/256 | 12.0 | 6.3% | intergenic (+382/+242) | USA300HOU_RS03915/USA300HOU_RS03920 | Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase |
| ? | USA300TCH1516_ALE | = 802168 | 88 (1.060) | intergenic (+409/+215) | USA300HOU_RS03915/USA300HOU_RS03920 | Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase | |||||
| * | ? | USA300TCH1516_ALE | 382471 = | 92 (1.020) | 4 (0.050) | 4/256 | 13.4 | 4.4% | intergenic (+4/+89) | USA300HOU_RS01745/ulaA | UDP‑glucose 4‑epimerase/Ascorbate‑specific PTS system EIIC component |
| ? | USA300TCH1516_ALE | 382543 = | 89 (1.070) | intergenic (+76/+17) | USA300HOU_RS01745/ulaA | UDP‑glucose 4‑epimerase/Ascorbate‑specific PTS system EIIC component | |||||
| * | ? | USA300TCH1516_ALE | 48947 = | 92 (1.020) | 5 (0.060) | 4/258 | 13.5 | 5.6% | intergenic (‑56/+178) | hin_2/USA300HOU_RS00205 | DNA‑invertase hin/hypothetical protein |
| ? | USA300TCH1516_ALE | 48972 = | 82 (0.980) | intergenic (‑81/+153) | hin_2/USA300HOU_RS00205 | DNA‑invertase hin/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 2679162 = | 83 (0.920) | 5 (0.060) | 4/266 | 13.8 | 5.9% | intergenic (+34/‑355) | USA300HOU_RS13790/ssaA2_4 | hypothetical protein/Staphylococcal secretory antigen ssaA2 |
| ? | USA300TCH1516_ALE | 2679186 = | 80 (0.930) | intergenic (+58/‑331) | USA300HOU_RS13790/ssaA2_4 | hypothetical protein/Staphylococcal secretory antigen ssaA2 | |||||
| * | ? | USA300TCH1516_ALE | 1117293 = | 98 (1.090) | 3 (0.040) | 3/248 | 13.9 | 3.3% | intergenic (+6/+148) | suhB_1/USA300TCH1516_01040 | Inositol‑1‑monophosphatase/hypothetical protein |
| ? | USA300TCH1516_ALE | 1117341 = | 88 (1.090) | intergenic (+54/+100) | suhB_1/USA300TCH1516_01040 | Inositol‑1‑monophosphatase/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 2497906 = | 106 (1.180) | 3 (0.040) | 3/256 | 14.2 | 3.0% | intergenic (+11/+75) | USA300HOU_RS12865/treP_2 | hypothetical protein/PTS system trehalose‑specific EIIBC component |
| ? | USA300TCH1516_ALE | 2497975 = | 97 (1.170) | intergenic (+80/+6) | USA300HOU_RS12865/treP_2 | hypothetical protein/PTS system trehalose‑specific EIIBC component | |||||
| * | ? | USA300TCH1516_ALE | 1683113 = | 96 (1.060) | 3 (0.040) | 3/256 | 14.2 | 3.6% | coding (145/699 nt) | USA300HOU_RS08385 | hypothetical protein |
| ? | USA300TCH1516_ALE | 1683167 = | 72 (0.870) | coding (91/699 nt) | USA300HOU_RS08385 | hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 1628158 = | 106 (1.180) | 4 (0.050) | 3/254 | 14.2 | 3.8% | coding (315/1407 nt) | gnd | 6‑phosphogluconate dehydrogenase, decarboxylating |
| ? | USA300TCH1516_ALE | 1628226 = | 103 (1.250) | coding (247/1407 nt) | gnd | 6‑phosphogluconate dehydrogenase, decarboxylating | |||||
| * | ? | USA300TCH1516_ALE | 2857675 = | 81 (0.900) | 3 (0.040) | 3/258 | 14.3 | 3.9% | intergenic (+71/‑172) | nixA/nhoA | High‑affinity nickel‑transport protein NixA/N‑hydroxyarylamine O‑acetyltransferase |
| ? | USA300TCH1516_ALE | 2857737 = | 74 (0.880) | intergenic (+133/‑110) | nixA/nhoA | High‑affinity nickel‑transport protein NixA/N‑hydroxyarylamine O‑acetyltransferase | |||||
| * | ? | USA300TCH1516_ALE | 2640242 = | 95 (1.050) | 3 (0.040) | 3/258 | 14.3 | 3.2% | intergenic (‑94/+60) | rspR/zntR | HTH‑type transcriptional repressor RspR/HTH‑type transcriptional regulator ZntR |
| ? | USA300TCH1516_ALE | 2640290 = | 92 (1.100) | intergenic (‑142/+12) | rspR/zntR | HTH‑type transcriptional repressor RspR/HTH‑type transcriptional regulator ZntR | |||||