mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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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 56 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,020,300 | 0 | A | C | 71.4% | ‑0.4 / 11.2 | 21 | E391D (GAA→GAC) | guaD | guanine deaminase |
| * | NZ_CP009273 | 518,782 | 0 | T | G | 60.0% | 6.0 / 12.6 | 15 | G22G (GGT→GGG) | rhsD | rhs element protein RhsD |
| * | NZ_CP009273 | 832,212 | 0 | T | G | 60.0% | 9.4 / 20.4 | 20 | F136V (TTT→GTT) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 937,169 | 0 | T | G | 60.0% | ‑2.6 / 20.8 | 20 | V252G (GTG→GGG) | dmsA | dimethylsulfoxide reductase subunit A |
| * | NZ_CP009273 | 1,152,727 | 0 | T | G | 60.0% | 1.9 / 12.3 | 15 | G165G (GGT→GGG) | ycfH | metal‑dependent hydrolase |
| * | NZ_CP009273 | 1,500,285 | 0 | A | C | 60.0% | 7.8 / 15.7 | 15 | V18G (GTA→GGA) | ydcO | BenE family transporter YdcO |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 60.0% | ‑2.8 / 14.0 | 15 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 2,380,357 | 0 | A | T | 60.0% | 3.5 / 15.7 | 15 | intergenic (+47/‑56) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 1,125,835 | 0 | A | C | 58.3% | 19.9 / 28.1 | 24 | V162G (GTA→GGA) | flgA | flagellar basal body P‑ring formation chaperone FlgA |
| * | NZ_CP009273 | 822,955 | 0 | T | G | 57.1% | 15.6 / 26.6 | 22 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 4,558,321 | 0 | T | G | 57.1% | 22.9 / 33.0 | 28 | T6P (ACC→CCC) | mdtM | multidrug efflux MFS transporter MdtM |
| * | NZ_CP009273 | 4,558,339 | 0 | C | A | 57.1% | 8.0 / 17.1 | 14 | intergenic (‑3/‑476) | mdtM/BW25113_RS25845 | multidrug efflux MFS transporter MdtM/Rpn family recombination‑promoting nuclease/putative transposase |
| * | NZ_CP009273 | 324,033 | 0 | T | G | 56.5% | 17.5 / 22.2 | 23 | T138P (ACC→CCC) | betB | betaine‑aldehyde dehydrogenase |
| * | NZ_CP009273 | 822,963 | 0 | T | G | 56.5% | 9.8 / 30.0 | 23 | D492A (GAC→GCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 2,371,284 | 0 | A | C | 54.5% | 8.8 / 11.0 | 11 | R485R (CGT→CGG) | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| * | NZ_CP009273 | 2,134,407 | 0 | A | C | 54.2% | 17.5 / 32.7 | 24 | G229G (GGT→GGG) | asmA | outer membrane assembly protein AsmA |
| * | NZ_CP009273 | 517,106 | 0 | T | G | 53.8% | 8.4 / 12.1 | 13 | V412G (GTA→GGA) | ybbP | ABC transporter permease |
| * | NZ_CP009273 | 890,386 | 0 | A | C | 53.8% | 11.5 / 14.5 | 13 | intergenic (+34/‑61) | potF/potG | spermidine/putrescine ABC transporter substrate‑binding protein PotF/putrescine ABC transporter ATP‑binding subunit PotG |
| * | NZ_CP009273 | 2,367,400 | 0 | A | C | 53.6% | 17.8 / 31.3 | 28 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑‑CoA ligase |
| * | NZ_CP009273 | 782,311 | 0 | A | C | 53.3% | 10.9 / 16.9 | 15 | G247G (GGT→GGG) | gpmA | 2,3‑diphosphoglycerate‑dependent phosphoglycerate mutase |
| 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 | = 508794 | 28 (1.010) | 3 (0.120) | 3/150 | 2.1 | 10.4% | coding (763/1293 nt) | ybaT | APC family permease |
| ? | NZ_CP009273 | = 508809 | 27 (1.100) | coding (778/1293 nt) | ybaT | APC family permease | |||||
| * | ? | NZ_CP009273 | = 4353280 | 48 (1.720) | 3 (0.120) | 3/158 | 2.2 | 6.9% | coding (1580/1698 nt) | dsbD | protein‑disulfide reductase DsbD |
| ? | NZ_CP009273 | = 4353321 | 36 (1.390) | coding (1539/1698 nt) | dsbD | protein‑disulfide reductase DsbD | |||||
| * | ? | NZ_CP009273 | 1317796 = | 28 (1.010) | 3 (0.120) | 3/152 | 2.2 | 12.0% | coding (320/882 nt) | yciV | RNase AM |
| ? | NZ_CP009273 | 1317821 = | 19 (0.760) | coding (345/882 nt) | yciV | RNase AM | |||||