mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
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 59 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,440,194 | 0 | C | A | 59.5% | 38.7 / 179.3 | 116 | G279V (GGT→GTT) | rpoA | RNA polymerase subunit alpha |
| * | NC_000913 | 3,335,773 | 0 | G | A | 55.4% | 28.2 / 108.7 | 74 | A241V (GCG→GTG) | murA | UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase |
| * | NC_000913 | 1,811,099 | 0 | C | T | 53.8% | 46.0 / 242.6 | 158 | Q56* (CAG→TAG) | tcyP | cystine/sulfocysteine:cation symporter |
| * | NC_000913 | 2,990,212 | 0 | G | A | 49.3% | 16.6 / inf | 213 | S50L (TCA→TTA) | yqeK | protein YqeK |
| * | NC_000913 | 12,086 | 0 | C | T | 48.4% | 23.7 / 197.2 | 126 | intergenic (‑300/‑77) | yaaI/dnaK | DUF2541 domain‑containing protein YaaI/chaperone protein DnaK |
| * | NC_000913 | 1,811,208 | 0 | T | C | 47.1% | 31.7 / 177.3 | 123 | V92A (GTT→GCT) | tcyP | cystine/sulfocysteine:cation symporter |
| * | NC_000913 | 3,213,803 | 0 | T | C | 46.3% | 32.9 / 210.4 | 134 | S253P (TCT→CCT) | rpoD | RNA polymerase, sigma 70 (sigma D) factor |
| * | NC_000913 | 380,013 | 0 | G | . | 43.2% | 156.1 / 140.1 | 74 | intergenic (‑132/+56) | frmR/yaiO | DNA‑binding transcriptional repressor FrmR/outer membrane protein YaiO |
| * | NC_000913 | 1,562,085 | 0 | C | T | 42.9% | 67.4 / 164.6 | 119 | A133T (GCA→ACA) | ddpA | putative D,D‑dipeptide ABC transporter periplasmic binding protein |
| * | NC_000913 | 3,850,891 | 0 | G | A | 42.7% | 70.1 / 179.8 | 124 | Q68* (CAA→TAA) | ilvN | acetohydroxy acid synthase I subunit IlvN |
| * | NC_000913 | 2,793,867 | 0 | C | A | 41.1% | 55.4 / 102.3 | 73 | A378D (GCT→GAT) | gabT | 4‑aminobutyrate aminotransferase GabT |
| * | NC_000913 | 214,885 | 0 | C | T | 37.4% | 101.0 / 138.7 | 116 | T18I (ACC→ATC) | arfB | peptidyl‑tRNA hydrolase, ribosome rescue factor |
| * | NC_000913 | 3,816,579 | 0 | G | A | 36.6% | 93.7 / 102.3 | 93 | intergenic (‑30/‑97) | rph/yicC | truncated RNase PH/UPF0701 family protein YicC |
| * | NC_000913 | 624,589 | 0 | T | C | 34.3% | 176.3 / 153.7 | 140 | intergenic (‑79/‑296) | fepB/entC | ferric enterobactin ABC transporter periplasmic binding protein/isochorismate synthase EntC |
| * | NC_000913 | 3,948,799 | 1 | . | G | 34.3% | 125.1 / 195.2 | 105 | coding (1171/1521 nt) | yifB | putative magnesium chelatase YifB |
| * | NC_000913 | 3,980,951 | 1 | . | G | 33.8% | 101.9 / 148.3 | 80 | coding (65/1386 nt) | yifK | putative transporter YifK |
| * | NC_000913 | 2,406,141 | 0 | A | G | 33.3% | 123.7 / 106.3 | 99 | R167R (CGT→CGC) | lrhA | DNA‑binding transcriptional dual regulator LrhA |
| * | NC_000913 | 1,162,751 | 0 | A | C | 32.6% | 79.1 / 12.9 | 43 | Q38H (CAA→CAC) | lpoB | outer membrane lipoprotein ‑ activator of MrcB activity |
| * | NC_000913 | 3,829,233 | 0 | C | A | 32.4% | 121.1 / 64.7 | 68 | L97M (CTG→ATG) | xanP | xanthine:H(+) symporter XanP |
| * | NC_000913 | 4,296,060 | 0 | C | T | 31.9% | 286.5 / 220.3 | 211 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1909637 | 128 (1.100) | 3 (0.030) | 3/78 | 5.8 | 3.0% | coding (463/792 nt) | kdgR | DNA‑binding transcriptional repressor KdgR |
| ? | NC_000913 | = 1909627 | 96 (1.040) | coding (473/792 nt) | kdgR | DNA‑binding transcriptional repressor KdgR | |||||
| * | ? | NC_000913 | 92847 = | 79 (0.680) | 3 (0.030) | 3/78 | 5.8 | 4.9% | coding (1435/1767 nt) | ftsI | peptidoglycan DD‑transpeptidase FtsI |
| ? | NC_000913 | = 92843 | 53 (0.570) | coding (1431/1767 nt) | ftsI | peptidoglycan DD‑transpeptidase FtsI | |||||
| * | ? | NC_000913 | 3343679 = | 147 (1.260) | 3 (0.030) | 3/86 | 6.1 | 2.3% | coding (300/558 nt) | lptA | lipopolysaccharide transport system protein LptA |
| ? | NC_000913 | 3343696 = | 124 (1.210) | coding (317/558 nt) | lptA | lipopolysaccharide transport system protein LptA | |||||
| * | ? | NC_000913 | = 625237 | 65 (0.560) | 3 (0.030) | 3/88 | 6.2 | 5.3% | coding (353/1176 nt) | entC | isochorismate synthase EntC |
| ? | NC_000913 | = 625262 | 48 (0.460) | coding (378/1176 nt) | entC | isochorismate synthase EntC | |||||
| * | ? | NC_000913 | = 1147246 | 119 (1.020) | 3 (0.030) | 3/90 | 6.3 | 2.5% | coding (453/522 nt) | yceD | DUF177 domain‑containing protein YceD |
| ? | NC_000913 | = 1147269 | 126 (1.180) | coding (476/522 nt) | yceD | DUF177 domain‑containing protein YceD | |||||
| * | ? | NC_000913 | 3846656 = | 116 (0.990) | 3 (0.030) | 3/94 | 6.4 | 2.5% | coding (512/1392 nt) | uhpT | hexose‑6‑phosphate:phosphate antiporter |
| ? | NC_000913 | 3846689 = | 125 (1.120) | coding (479/1392 nt) | uhpT | hexose‑6‑phosphate:phosphate antiporter | |||||