mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 242 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,036,353 | 0 | C | T | 45.0% | 24.9 / 15.9 | 40 | F193F (TTC→TTT) | srkA | stress response kinase SrkA |
| * | NZ_CP009273 | 3,616,223 | 0 | A | G | 43.7% | 86.5 / 309.4 | 222 | G1224G (GGA→GGG) | rhsB | rhs element protein RhsB |
| * | NZ_CP009273 | 3,616,199 | 0 | A | G | 42.6% | 98.0 / 282.4 | 205 | R1216R (CGA→CGG) | rhsB | rhs element protein RhsB |
| * | NZ_CP009273 | 1,548,257 | 0 | T | G | 41.7% | 95.1 / 17.3 | 73 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
| * | NZ_CP009273 | 4,036,390 | 0 | A | G | 40.8% | 66.7 / 16.9 | 49 | N206D (AAT→GAT) | srkA | stress response kinase SrkA |
| * | NZ_CP009273 | 2,221,718 | 0 | G | C | 36.4% | 62.5 / 10.6 | 44 | pseudogene (520/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 2,319,929 | 0 | T | G | 35.9% | 175.9 / 46.6 | 92 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NZ_CP009273 | 2,221,757 | 0 | G | C | 35.0% | 62.9 / 10.1 | 40 | pseudogene (481/1436 nt) | mdtQ | multidrug resistance outer membrane protein MdtQ |
| * | NZ_CP009273 | 441,014 | 0 | A | C | 33.8% | 120.5 / 13.4 | 74 | V370G (GTA→GGA) | yajR | MFS transporter |
| * | NZ_CP009273 | 1,548,312 | 0 | T | G | 32.9% | 145.5 / 16.6 | 73 | T539P (ACC→CCC) | maeA | malate dehydrogenase |
| * | NZ_CP009273 | 3,776,273 | 0 | A | C | 32.8% | 70.2 / 17.3 | 68 | V250G (GTG→GGG) | gpsA | NAD(P)H‑dependent glycerol‑3‑phosphate dehydrogenase |
| * | NZ_CP009273 | 2,997,280 | 0 | T | G | 32.1% | 254.9 / 24.6 | 110 | Y145D (TAT→GAT) | xdhC | xanthine dehydrogenase iron sulfur‑binding subunit XdhC |
| * | NZ_CP009273 | 879,640 | 0 | A | G | 31.7% | 166.6 / 16.0 | 108 | E171G (GAG→GGG) | mdfA | multidrug efflux MFS transporter MdfA |
| * | NZ_CP009273 | 1,870,272 | 0 | A | G | 31.7% | 145.3 / 23.4 | 83 | I115V (ATT→GTT) | nimT | 2‑nitroimidazole transporter |
| * | NZ_CP009273 | 1,995,392 | 0 | G | A | 31.1% | 165.6 / 33.4 | 90 | intergenic (‑122/+199) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NZ_CP009273 | 3,837,579 | 0 | T | G | 31.0% | 248.7 / 11.0 | 113 | F86V (TTT→GTT) | adeD | adenine deaminase |
| * | NZ_CP009273 | 3,199,805 | 0 | C | A | 30.8% | 123.7 / 16.5 | 80 | intergenic (‑190/‑17) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| * | NZ_CP009273 | 3,738,757 | 0 | A | C | 30.4% | 180.4 / 19.7 | 149 | L198F (TTA→TTC) | yiaN | 2,3‑diketo‑L‑gulonate transporter large permease YiaN |
| * | NZ_CP009273 | 1,995,399 | 0 | A | C | 30.3% | 202.1 / 12.1 | 89 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase sigma factor FliA/H48 family flagellin FliC |
| * | NZ_CP009273 | 2,621,979 | 0 | T | A | 30.0% | 184.0 / 23.1 | 90 | T107S (ACT→TCT) | pdeF | cyclic‑guanylate‑specific phosphodiesterase PdeF |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 1203246 = | 89 (0.690) | 30 (0.250) | 28/464 | 8.7 | 26.3% | coding (290/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | 1205075 = | 85 (0.700) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 1203261 | 87 (0.670) | 25 (0.210) | 24/464 | 9.9 | 23.2% | coding (305/630 nt) | BW25113_RS05990 | protein StfP |
| ? | NZ_CP009273 | = 1205058 | 84 (0.700) | coding (57/540 nt) | BW25113_RS06005 | phage tail protein | |||||