mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 71 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 83,579 | 1 | . | A | 78.6% | 101.0 / 22.0 | 42 | intergenic (‑50/+43) | leuA/leuL | 2‑isopropylmalate synthase/leu operon leader peptide |
| * | NC_000913 | 2,909,602 | 0 | G | A | 59.6% | 34.1 / 39.6 | 49 | A22V (GCA→GTA) | pyrG | CTP synthetase |
| * | NC_000913 | 139,988 | 0 | A | . | 49.5% | 175.6 / 184.3 | 96 | coding (1238/2391 nt) | gcd | quinoprotein glucose dehydrogenase |
| * | NC_000913 | 811,721 | 0 | T | G | 45.0% | 79.2 / 15.2 | 82 | V67G (GTG→GGG) | bioC | malonyl‑acyl carrier protein methyltransferase |
| * | NC_000913 | 4,377,550 | 0 | T | C | 36.3% | 86.6 / 98.3 | 94 | E58G (GAA→GGA) | blc | outer membrane lipoprotein Blc |
| * | NC_000913 | 803,869 | 0 | G | T | 36.1% | 30.3 / 17.0 | 36 | V123L (GTG→TTG) | ybhJ | putative hydratase YbhJ |
| * | NC_000913 | 3,901,817 | 0 | C | . | 35.6% | 138.1 / 103.0 | 75 | coding (404/1617 nt) | bglH | carbohydrate‑specific outer membrane porin, cryptic |
| * | NC_000913 | 4,622,250 | 0 | A | G | 35.1% | 91.6 / 17.6 | 57 | E161G (GAG→GGG) | yjjJ | toxin YjjJ |
| * | NC_000913 | 1,435,725 | 0 | C | A | 34.3% | 40.1 / 17.1 | 35 | intergenic (‑106/+35) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 1,435,727 | 0 | G | A | 34.3% | 46.8 / 19.3 | 35 | intergenic (‑108/+33) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 948,528 | 0 | A | G | 34.2% | 52.2 / 32.5 | 44 | I434V (ATC→GTC) | ycaM | putative transporter YcaM |
| * | NC_000913 | 119,384 | 0 | T | G | 33.9% | 81.7 / 11.5 | 60 | V35G (GTG→GGG) | ampE | protein AmpE |
| * | NC_000913 | 339,621 | 0 | A | G | 33.0% | 111.0 / 82.5 | 94 | I433V (ATC→GTC) | yahG | DUF1116 domain‑containing protein YahG |
| * | NC_000913 | 4,027,233 | 0 | T | A | 32.8% | 83.2 / 21.3 | 61 | intergenic (+5/+376) | fre/fadA | NAD(P)H‑flavin reductase/3‑ketoacyl‑CoA thiolase |
| * | NC_000913 | 308,594 | 0 | T | G | 32.3% | 91.9 / 14.4 | 68 | T247P (ACC→CCC) | ecpC | putative fimbrial usher protein EcpC |
| * | NC_000913 | 599,576 | 0 | T | G | 32.2% | 77.1 / 14.1 | 59 | V288G (GTG→GGG) | cusA | copper/silver export system RND permease |
| * | NC_000913 | 3,788,025 | 0 | T | G | 32.2% | 166.4 / 17.1 | 115 | G396G (GGT→GGG) | envC | murein hydrolase activator EnvC |
| * | NC_000913 | 3,458,232 | 0 | T | A | 31.0% | 125.4 / 66.5 | 90 | I619N (ATC→AAC) | gspD | Type II secretion system protein GspD |
| * | NC_000913 | 2,337,723 | 0 | A | C | 30.4% | 79.8 / 13.4 | 58 | G566G (GGT→GGG) | gyrA | DNA gyrase subunit A |
| * | NC_000913 | 3,883,244 | 0 | G | A | 30.3% | 127.9 / 94.4 | 111 | G162G (GGC→GGT) | dnaA | chromosomal replication initiator protein DnaA |
| 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 | = 3958551 | 145 (2.040) | 3 (0.040) | 3/488 | 3.9 | 2.2% | coding (582/1476 nt) | ilvC | ketol‑acid reductoisomerase (NADP(+)) |
| ? | NC_000913 | 4626635 = | 126 (1.780) | coding (724/1383 nt) | radA | DNA recombination protein | |||||
| * | ? | NC_000913 | 3428156 = | NA (NA) | 3 (0.040) +T |
3/488 | 3.9 | 3.3% | noncoding (607/1542 nt) | rrsD | 16S ribosomal RNA |
| ? | NC_000913 | 3595835 = | 88 (1.240) | coding (569/927 nt) | livH | branched chain amino acid/phenylalanine ABC transporter membrane subunit LivH | |||||
| * | ? | NC_000913 | = 2563393 | 36 (0.510) | 3 (0.040) | 3/488 | 3.9 | 5.8% | intergenic (+276/‑199) | yffP/yffQ | uncharacterized protein YffP/uncharacterized protein YffQ |
| ? | NC_000913 | = 3201007 | 62 (0.880) | intergenic (‑42/‑200) | ygiF/ygiM | inorganic triphosphatase/putative signal transduction protein (SH3 domain) | |||||