mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 78 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,326,450 | 0 | T | G | 36.0% | 202.7 / 20.3 | 100 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 1,435,715 | 0 | G | A | 34.0% | 78.5 / 16.6 | 50 | intergenic (‑96/+45) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 811,721 | 0 | T | G | 32.6% | 227.9 / 27.9 | 141 | V67G (GTG→GGG) | bioC | malonyl‑acyl carrier protein methyltransferase |
| * | NC_000913 | 1,435,727 | 0 | G | A | 32.1% | 92.8 / 23.5 | 53 | intergenic (‑108/+33) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 1,435,718 | 0 | G | A | 31.4% | 91.8 / 14.5 | 51 | intergenic (‑99/+42) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 1,435,725 | 0 | C | A | 31.4% | 84.3 / 18.8 | 52 | intergenic (‑106/+35) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 2,810,758 | 0 | G | A | 31.2% | 56.7 / 37.9 | 48 | intergenic (+79/‑12) | ygaH/mprA | L‑valine exporter, YgaH component/DNA‑binding transcriptional regulator MprA |
| * | NC_000913 | 1,825,061 | 0 | G | A | 31.1% | 117.4 / 20.4 | 61 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 2,483,268 | 0 | T | A | 30.8% | 58.8 / 10.6 | 39 | L24F (TTA→TTT) | emrK | tripartite efflux pump membrane fusion protein EmrK |
| * | NC_000913 | 3,665,702 | 0 | C | A | 30.4% | 75.5 / 11.7 | 48 | A37S (GCG→TCG) | gadX | DNA‑binding transcriptional dual regulator GadX |
| * | NC_000913 | 4,213,765 | 0 | A | C | 29.7% | 142.3 / 10.2 | 75 | V120G (GTG→GGG) | yjaB | peptidyl‑lysine N‑acetyltransferase YjaB |
| * | NC_000913 | 2,558,531 | 0 | A | C | 29.5% | 245.1 / 11.1 | 114 | V50G (GTG→GGG) | eutB | ethanolamine ammonia‑lyase subunit alpha |
| * | NC_000913 | 5,159 | 0 | G | A | 28.8% | 102.8 / 13.4 | 54 | intergenic (+139/‑75) | thrC/yaaX | threonine synthase/DUF2502 domain‑containing protein YaaX |
| * | NC_000913 | 1,435,707 | 0 | C | A | 28.6% | 107.0 / 12.9 | 56 | intergenic (‑88/+53) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 4,622,250 | 0 | A | G | 28.6% | 213.1 / 18.4 | 98 | E161G (GAG→GGG) | yjjJ | toxin YjjJ |
| * | NC_000913 | 3,261,055 | 0 | A | C | 28.4% | 277.7 / 14.1 | 134 | V455G (GTG→GGG) | tdcE | 2‑ketobutyrate formate‑lyase/pyruvate formate‑lyase 4 |
| * | NC_000913 | 1,825,056 | 0 | G | A | 28.3% | 110.7 / 20.1 | 60 | intergenic (‑119/+84) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 1,104,175 | 0 | T | G | 28.2% | 147.0 / 13.4 | 71 | G75G (GGT→GGG) | csgB | curlin, minor subunit |
| * | NC_000913 | 2,434,882 | 0 | T | G | 28.1% | 188.9 / 15.9 | 91 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 3,665,698 | 0 | T | C | 28.0% | 93.3 / 13.8 | 52 | D38G (GAT→GGT) | gadX | DNA‑binding transcriptional dual regulator GadX |
| Marginal new junction evidence (lowest skew 10 of 11 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1411899 = | 83 (0.770) | 7 (0.070) | 7/444 | 5.8 | 9.8% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 55 (0.570) | intergenic (‑552/+227) | ynaM/uspF | protein YnaM/universal stress protein F | |||||
| * | ? | NC_000913 | = 2346779 | 149 (1.380) | 3 (0.030) | 3/482 | 7.9 | 2.5% | coding (1915/2286 nt) | nrdA | ribonucleoside‑diphosphate reductase 1 subunit alpha |
| ? | NC_000913 | 3421147 = | 90 (0.860) | coding (1014/1182 nt) | yhdX | putative ABC transporter membrane subunit YhdX | |||||
| * | ? | NC_000913 | = 114172 | 94 (0.870) | 3 (0.030) | 3/492 | 7.9 | 2.4% | coding (729/1044 nt) | guaC | GMP reductase |
| ? | NC_000913 | 858383 = | 153 (1.430) | coding (679/1266 nt) | ybiU | DUF1479 domain‑containing protein YbiU | |||||
| * | ? | NC_000913 | 3570760 = | 163 (1.510) | 3 (0.030) | 3/496 | 8.0 | 1.9% | coding (560/1974 nt) | glgX | limit dextrin alpha‑1,6‑glucohydrolase |
| ? | NC_000913 | = 4186474 | 145 (1.340) | coding (1125/4224 nt) | rpoC | RNA polymerase subunit beta' | |||||
| * | ? | NC_000913 | 2936345 = | 130 (1.200) | 3 (0.030) | 3/496 | 8.0 | 2.3% | coding (762/1776 nt) | fucI | L‑fucose isomerase |
| ? | NC_000913 | = 4024217 | 124 (1.150) | coding (664/783 nt) | tatD | 3' ‑> 5' ssDNA/RNA exonuclease TatD | |||||
| * | ? | NC_000913 | = 1799821 | 114 (1.050) | 3 (0.030) | 3/496 | 8.0 | 2.6% | coding (179/198 nt) | rpmI | 50S ribosomal subunit protein L35 |
| ? | NC_000913 | = 2094829 | 113 (1.040) | coding (295/591 nt) | hisH | imidazole glycerol phosphate synthase subunit HisH | |||||
| * | ? | NC_000913 | 1767419 = | 133 (1.230) | 3 (0.030) | 3/496 | 8.0 | 2.5% | coding (1267/3057 nt) | ydiJ | putative FAD‑linked oxidoreductase YdiJ |
| ? | NC_000913 | = 2546108 | 104 (0.960) | coding (336/897 nt) | murQ | N‑acetylmuramic acid 6‑phosphate etherase | |||||
| * | ? | NC_000913 | = 1531418 | 61 (0.560) | 3 (0.030) | 3/496 | 8.0 | 4.7% | intergenic (‑914/‑398) | yncO/ydcC | protein YncO/H repeat‑associated putative transposase YdcC |
| ? | NC_000913 | 1531422 = | 61 (0.560) | intergenic (‑918/‑394) | yncO/ydcC | protein YncO/H repeat‑associated putative transposase YdcC | |||||
| * | ? | NC_000913 | 1455109 = | 132 (1.220) | 3 (0.030) | 3/496 | 8.0 | 2.0% | coding (242/288 nt) | paaB | phenylacetyl‑CoA 1,2‑epoxidase subunit B |
| ? | NC_000913 | 4019841 = | 166 (1.530) | coding (218/606 nt) | ubiJ | ubiquinone biosynthesis accessory factor UbiJ | |||||
| * | ? | NC_000913 | = 495833 | 120 (1.110) | 3 (0.030) +G |
3/494 | 8.0 | 2.9% | coding (714/1875 nt) | htpG | chaperone protein HtpG |
| ? | NC_000913 | 2359549 = | 85 (0.790) | coding (604/1290 nt) | yfaV | putative transporter YfaV | |||||