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 89 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 937,169 | 0 | T | G | 56.5% | ‑3.7 / 18.5 | 23 | V252G (GTG→GGG) | dmsA | dimethylsulfoxide reductase subunit A |
| * | NZ_CP009273 | 3,203,095 | 0 | T | C | 55.6% | 5.5 / 12.8 | 18 | S270G (AGT→GGT) | tsaD | tRNA (adenosine(37)‑N6)‑threonylcarbamoyltransferase complex transferase subunit TsaD |
| * | NZ_CP009273 | 2,089,571 | 0 | A | G | 53.3% | 9.7 / 31.1 | 30 | I83V (ATT→GTT) | hisF | imidazole glycerol phosphate synthase subunit HisF |
| * | NZ_CP009273 | 2,371,314 | 0 | G | A | 52.9% | 3.1 / 17.7 | 17 | F475F (TTC→TTT) | menD | 2‑succinyl‑5‑enolpyruvyl‑6‑hydroxy‑3‑ cyclohexene‑1‑carboxylic‑acid synthase |
| * | NZ_CP009273 | 1,213,865 | 0 | G | T | 52.6% | 12.1 / 25.7 | 19 | S361I (AGT→ATT) | pdeG | cyclic diguanylate phosphodiesterase |
| * | NZ_CP009273 | 701,009 | 0 | T | A | 50.0% | 12.8 / 12.1 | 22 | I537N (ATC→AAC) | nagE | PTS N‑acetyl glucosamine transporter subunit IIABC |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 50.0% | 38.3 / 48.9 | 63 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 832,042 | 0 | C | G | 48.5% | 26.9 / 11.3 | 33 | A79G (GCG→GGG) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 2,852,466 | 0 | T | G | 48.5% | 11.2 / 11.7 | 33 | V672G (GTG→GGG) | mutS | DNA mismatch repair protein MutS |
| * | NZ_CP009273 | 4,612,067 | 0 | A | G | 47.5% | 29.8 / 15.7 | 41 | E161G (GAG→GGG) | yjjJ | type II toxin‑antitoxin system HipA family toxin YjjJ |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 46.8% | 52.0 / 41.2 | 63 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 45.2% | 20.9 / 22.1 | 32 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 1,819,318 | 0 | G | A | 45.0% | 12.9 / 12.7 | 20 | intergenic (‑124/+79) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | NZ_CP009273 | 2,778,686 | 0 | T | G | 42.6% | 76.5 / 10.9 | 69 | intergenic (‑316/+435) | BW25113_RS25705/BW25113_RS13825 | DUF5507 domain‑containing protein/tRNA‑Ile |
| * | NZ_CP009273 | 349,999 | 0 | T | G | 41.7% | 60.0 / 31.5 | 72 | V528G (GTG→GGG) | prpE | propionate‑‑CoA ligase |
| * | NZ_CP009273 | 497,020 | 0 | A | C | 41.4% | 19.9 / 10.1 | 29 | *559E (TAA→GAA) | ybaL | Kef family K(+) transporter |
| * | NZ_CP009273 | 4,086,499 | 0 | C | A | 41.3% | 65.3 / 22.9 | 46 | V100V (GTG→GTT) | rhaM | L‑rhamnose mutarotase |
| * | NZ_CP009273 | 4,058,958 | 0 | G | A | 40.9% | 47.8 / 22.4 | 44 | L57L (CTG→TTG) | yihO | MFS transporter |
| * | NZ_CP009273 | 595,032 | 0 | T | G | 40.0% | 3.2 / 14.2 | 21 | V288G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 4,570,447 | 0 | A | T | 40.0% | 85.3 / 19.2 | 55 | L278Q (CTA→CAA) | hsdS | type I restriction‑modification system specificity subunit |
| 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 | = 4331930 | 62 (1.380) | 6 (0.130) +CCA |
3/146 | 3.2 | 8.8% | coding (203/1356 nt) | melA | alpha‑galactosidase |
| ? | NZ_CP009273 | 4331931 = | 64 (1.350) | coding (204/1356 nt) | melA | alpha‑galactosidase | |||||
| * | ? | NZ_CP009273 | = 3606532 | 46 (0.970) | 3 (0.070) | 3/142 | 3.2 | 7.2% | coding (204/588 nt) | acpT | 4'‑phosphopantetheinyl transferase AcpT |
| ? | NZ_CP009273 | = 3606543 | 36 (0.860) | coding (215/588 nt) | acpT | 4'‑phosphopantetheinyl transferase AcpT | |||||
| * | ? | NZ_CP009273 | = 3575002 | 141 (2.970) | 3 (0.070) | 3/142 | 3.2 | 2.3% | intergenic (+16/‑221) | yhhY/hcp | N‑acetyltransferase/Hcp1 family type VI secretion system effector |
| ? | NZ_CP009273 | = 3575009 | 133 (3.160) | intergenic (+23/‑214) | yhhY/hcp | N‑acetyltransferase/Hcp1 family type VI secretion system effector | |||||
| * | ? | NZ_CP009273 | = 3495665 | 67 (1.410) | 3 (0.070) | 3/144 | 3.2 | 4.7% | intergenic (+16/‑34) | frlB/frlC | fructoselysine 6‑phosphate deglycase/fructoselysine 3‑epimerase |
| ? | NZ_CP009273 | = 3495669 | 62 (1.450) | intergenic (+20/‑30) | frlB/frlC | fructoselysine 6‑phosphate deglycase/fructoselysine 3‑epimerase | |||||
| * | ? | NZ_CP009273 | = 2886051 | 51 (1.080) | 3 (0.070) | 3/148 | 3.3 | 6.2% | coding (36/1272 nt) | ygcN | FAD‑dependent oxidoreductase |
| ? | NZ_CP009273 | = 2886060 | 43 (0.980) | coding (45/1272 nt) | ygcN | FAD‑dependent oxidoreductase | |||||
| * | ? | NZ_CP009273 | = 455339 | 64 (1.350) | 3 (0.070) | 3/154 | 3.3 | 4.7% | coding (996/2355 nt) | lon | endopeptidase La |
| ? | NZ_CP009273 | = 455342 | 61 (1.340) | coding (999/2355 nt) | lon | endopeptidase La | |||||