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 36 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 941,713 | 0 | T | G | 39.5% | 63.1 / 12.8 | 38 | V252G (GTG→GGG) | dmsA | dimethyl sulfoxide reductase subunit A |
| * | NC_000913 | 1,554,000 | 0 | T | G | 35.2% | 64.1 / 10.2 | 54 | Y557S (TAC→TCC) | maeA | malate dehydrogenase (oxaloacetate‑decarboxylating) |
| * | NC_000913 | 1,315,884 | 0 | C | T | 33.3% | 59.4 / 11.1 | 37 | S51N (AGC→AAC) | yciG | stress‑induced bacterial acidophilic repeat motifs‑containing protein YciG |
| * | NC_000913 | 2,001,911 | 0 | G | A | 33.3% | 52.6 / 14.2 | 36 | intergenic (‑122/+1) | fliA/fliX | RNA polymerase sigma factor FliA/small RNA FliX |
| * | NC_000913 | 1,413,735 | 0 | A | T | 32.3% | 57.9 / 13.3 | 31 | Y2* (TAT→TAA) *65K (TAA→AAA) | rcbA ralR | double‑strand break reduction protein endodeoxyribonuclease toxin RalR |
| * | NC_000913 | 343,444 | 0 | A | G | 32.2% | 108.3 / 13.3 | 59 | G187G (GGA→GGG) | yahK | aldehyde reductase, NADPH‑dependent |
| * | NC_000913 | 3,003,921 | 0 | T | G | 31.8% | 142.6 / 13.5 | 63 | Y145D (TAT→GAT) | xdhC | putative xanthine dehydrogenase iron‑sulfur‑binding subunit XdhC |
| * | NC_000913 | 1,026,446 | 0 | C | G | 31.7% | 95.4 / 13.0 | 42 | A659G (GCA→GGA) | helD | DNA helicase IV |
| * | NC_000913 | 3,177,748 | 0 | C | A | 31.7% | 65.6 / 11.7 | 41 | E55* (GAG→TAG) | nudF | ADP‑sugar pyrophosphatase |
| * | NC_000913 | 4,604,344 | 0 | C | T | 30.9% | 66.4 / 12.0 | 42 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,505,088 | 0 | C | T | 30.8% | 55.3 / 10.3 | 40 | S311S (TCG→TCA) | yhfS | putative aminotransferase YhfS |
| * | NC_000913 | 2,950,201 | 0 | T | G | 30.3% | 135.8 / 10.0 | 66 | G320G (GGT→GGG) | argA | N‑acetylglutamate synthase |
| * | NC_000913 | 634,315 | 0 | A | G | 30.0% | 95.2 / 13.1 | 50 | K244E (AAA→GAA) | ybdL | methionine transaminase |
| * | NC_000913 | 2,465,541 | 0 | C | T | 29.8% | 82.6 / 12.3 | 47 | Q81* (CAA→TAA) | yfdC | inner membrane protein YfdC |
| * | NC_000913 | 3,947,850 | 0 | C | T | 29.8% | 89.3 / 16.7 | 47 | E40K (GAA→AAA) | hdfR | DNA‑binding transcriptional dual regulator HdfR |
| * | NC_000913 | 3,830,325 | 0 | G | A | 29.5% | 64.9 / 12.9 | 44 | E461K (GAA→AAA) | xanP | xanthine:H(+) symporter XanP |
| * | NC_000913 | 3,697,740 | 0 | T | G | 28.6% | 170.7 / 15.5 | 77 | V428G (GTG→GGG) | bcsE | c‑di‑GMP‑binding protein BcsE |
| * | NC_000913 | 2,851,654 | 0 | T | G | 28.4% | 175.4 / 10.2 | 75 | G218G (GGT→GGG) | hypB | hydrogenase isoenzymes nickel incorporation protein HypB |
| * | NC_000913 | 3,556,200 | 0 | G | A | 27.8% | 59.5 / 11.8 | 37 | S217F (TCC→TTC) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 4,161,142 | 0 | C | A | 27.1% | 100.9 / 14.1 | 48 | Q26K (CAA→AAA) | fabR | DNA‑binding transcriptional repressor FabR |
| 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 | = 1250361 | 56 (0.940) | 3 (0.050) | 3/490 | 7.1 | 5.1% | coding (478/1071 nt) | dhaK | dihydroxyacetone kinase subunit K |
| ? | NC_000913 | = 1307952 | 55 (0.930) | coding (694/1461 nt) | clsA | cardiolipin synthase A | |||||
| * | ? | NC_000913 | = 986843 | 41 (0.690) | 3 (0.050) | 3/490 | 7.1 | 5.6% | coding (140/1089 nt) | ompF | outer membrane porin F |
| ? | NC_000913 | 4132521 = | 60 (1.010) | intergenic (+254/‑95) | metL/metF | fused aspartate kinase/homoserine dehydrogenase 2/5,10‑methylenetetrahydrofolate reductase | |||||
| * | ? | NC_000913 | = 589533 | 85 (1.430) | 3 (0.050) | 3/490 | 7.1 | 3.9% | coding (1422/2973 nt) | nfrA | exopolysaccharide secretion system outer membrane protein NfrA |
| ? | NC_000913 | 1509348 = | 62 (1.040) | coding (63/177 nt) | hicA | mRNA interferase toxin HicA | |||||
| * | ? | NC_000913 | = 23617 | 88 (1.480) | 3 (0.050) | 3/490 | 7.1 | 3.1% | coding (1227/2817 nt) | ileS | isoleucine‑‑tRNA ligase |
| ? | NC_000913 | = 3381914 | 99 (1.670) | coding (1172/1368 nt) | degQ | periplasmic serine endoprotease | |||||