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 | 45.6% | 47.3 / 230.4 | 185 | intergenic (+711/‑6052) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| * | USA300TCH1516_ALE | 111,512 | 0 | A | G | 34.0% | 188.6 / 127.6 | 150 | S194S (TCA→TCG) | USA300HOU_RS00520 | putative lipoprotein |
| * | USA300TCH1516_ALE | 111,516 | 0 | C | A | 33.8% | 214.6 / 107.8 | 142 | Q196K (CAA→AAA) | USA300HOU_RS00520 | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 26 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | = 800928 | 83 (0.960) | 8 (0.100) | 5/282 | 6.6 | 11.0% | intergenic (+62/‑289) | hisC_1/USA300HOU_RS03915 | Histidinol‑phosphate aminotransferase/Putative 5'(3')‑deoxyribonucleotidase |
| ? | USA300TCH1516_ALE | 801948 = | 51 (0.620) | intergenic (+189/+435) | USA300HOU_RS03915/USA300HOU_RS03920 | Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase | |||||
| * | ? | USA300TCH1516_ALE | 291054 = | 106 (1.230) | 4 (0.050) | 4/284 | 7.1 | 3.6% | coding (719/1260 nt) | gatC_1 | PTS system galactitol‑specific EIIC component |
| ? | USA300TCH1516_ALE | 291069 = | 111 (1.340) | coding (734/1260 nt) | gatC_1 | PTS system galactitol‑specific EIIC component | |||||
| * | ? | USA300TCH1516_ALE | = 1217693 | 54 (0.620) | 3 (0.040) | 3/264 | 7.3 | 5.4% | intergenic (+22/‑415) | USA300HOU_RS06060/USA300HOU_RS06065 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | = 1217729 | 56 (0.730) | intergenic (+58/‑379) | USA300HOU_RS06060/USA300HOU_RS06065 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 2660581 | 123 (1.420) | 3 (0.040) | 3/272 | 7.5 | 2.6% | intergenic (+23/+226) | ldhD_1/ybiV | D‑lactate dehydrogenase/Sugar phosphatase YbiV |
| ? | USA300TCH1516_ALE | = 2660590 | 109 (1.370) | intergenic (+32/+217) | ldhD_1/ybiV | D‑lactate dehydrogenase/Sugar phosphatase YbiV | |||||
| * | ? | USA300TCH1516_ALE | 2314120 = | 88 (1.020) | 3 (0.040) | 3/280 | 7.6 | 3.5% | coding (1150/1194 nt) | ndhE | NAD(P)H‑quinone oxidoreductase subunit 4L, chloroplastic |
| ? | USA300TCH1516_ALE | 2314139 = | 82 (1.000) | coding (1131/1194 nt) | ndhE | NAD(P)H‑quinone oxidoreductase subunit 4L, chloroplastic | |||||
| * | ? | USA300TCH1516_ALE | 665005 = | 100 (1.160) | 3 (0.040) | 3/282 | 7.6 | 3.0% | intergenic (+17/‑152) | ywqN_2/paiA_1 | Putative NAD(P)H‑dependent FMN‑containing oxidoreductase YwqN/Spermidine/spermine N(1)‑acetyltransferase |
| ? | USA300TCH1516_ALE | 665029 = | 101 (1.230) | intergenic (+41/‑128) | ywqN_2/paiA_1 | Putative NAD(P)H‑dependent FMN‑containing oxidoreductase YwqN/Spermidine/spermine N(1)‑acetyltransferase | |||||
| * | ? | USA300TCH1516_ALE | = 622825 | 72 (0.830) | 3 (0.040) | 3/278 | 7.6 | 4.2% | coding (3388/3465 nt) | sdrE | Serine‑aspartate repeat‑containing protein E |
| ? | USA300TCH1516_ALE | = 622828 | 70 (0.860) | coding (3391/3465 nt) | sdrE | Serine‑aspartate repeat‑containing protein E | |||||
| * | ? | USA300TCH1516_ALE | = 2031791 | 102 (1.180) | 4 (0.050) | 3/286 | 7.7 | 4.0% | intergenic (+257/+233) | USA300HOU_RS10250/USA300HOU_RS10255 | hypothetical protein/hypothetical protein |
| ? | USA300TCH1516_ALE | = 2031829 | 96 (1.150) | intergenic (+295/+195) | USA300HOU_RS10250/USA300HOU_RS10255 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | = 1470058 | 85 (0.980) | 4 (0.050) | 3/286 | 7.7 | 4.4% | intergenic (‑105/‑240) | USA300TCH1516_01369/rnhA | hypothetical protein/14.7 kDa ribonuclease H‑like protein |
| ? | USA300TCH1516_ALE | = 2031786 | 93 (1.110) | intergenic (+252/+238) | USA300HOU_RS10250/USA300HOU_RS10255 | hypothetical protein/hypothetical protein | |||||
| * | ? | USA300TCH1516_ALE | 1380507 = | 58 (0.670) | 4 (0.050) | 3/286 | 7.7 | 5.1% | intergenic (+321/‑571) | opuD_1/acnA | Glycine betaine transporter OpuD/Aconitate hydratase A |
| ? | USA300TCH1516_ALE | = 2031786 | 93 (1.110) | intergenic (+252/+238) | USA300HOU_RS10250/USA300HOU_RS10255 | hypothetical protein/hypothetical protein | |||||