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 168 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 832,042 | 0 | C | G | 67.9% | ‑2.8 / 24.7 | 28 | A79G (GCG→GGG) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 832,048 | 0 | T | G | 64.3% | 10.6 / 20.6 | 28 | V81G (GTC→GGC) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 2,436,061 | 0 | T | G | 61.1% | 6.8 / 11.5 | 18 | G273G (GGT→GGG) | mnmC | bifunctional tRNA (5‑methylaminomethyl‑2‑thiouridine)(34)‑methyltransferase MnmD/FAD‑dependent 5‑carboxymethylaminomethyl‑2‑thiouridine(34) oxidoreductase MnmC |
| * | NZ_CP009273 | 822,955 | 0 | T | G | 60.0% | 21.2 / 28.8 | 30 | T495P (ACC→CCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 595,035 | 0 | T | G | 55.6% | ‑4.2 / 25.0 | 27 | V289G (GTG→GGG) | cusA | Cu(+)/Ag(+) efflux RND transporter permease subunit CusA |
| * | NZ_CP009273 | 1,906,007 | 0 | T | G | 55.6% | 17.2 / 27.6 | 27 | H276P (CAC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 55.6% | 11.1 / 26.8 | 27 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 2,089,567 | 0 | T | G | 55.6% | 22.5 / 29.4 | 27 | G81G (GGT→GGG) | hisF | imidazole glycerol phosphate synthase subunit HisF |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 54.5% | 15.4 / 86.5 | 66 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,367,400 | 0 | A | C | 54.2% | 27.9 / 50.7 | 48 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑‑CoA ligase |
| * | NZ_CP009273 | 766,353 | 0 | T | G | 53.6% | 15.1 / 31.3 | 28 | intergenic (+286/‑561) | mngB/cydA | mannosylglycerate hydrolase/cytochrome ubiquinol oxidase subunit I |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 53.3% | 4.2 / 17.7 | 15 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 2,601,603 | 0 | T | G | 53.3% | 16.5 / 22.8 | 30 | V443G (GTG→GGG) | hyfF | hydrogenase 4 subunit F |
| * | NZ_CP009273 | 1,548,257 | 0 | T | G | 53.1% | 20.5 / 28.2 | 32 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 53.0% | 28.8 / 91.2 | 66 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 822,963 | 0 | T | G | 52.9% | 10.4 / 37.4 | 34 | D492A (GAC→GCC) | ybhF | ATP‑binding cassette domain‑containing protein |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 52.8% | 7.1 / 47.8 | 36 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 2,380,362 | 0 | C | T | 52.6% | 9.2 / 53.9 | 38 | intergenic (+52/‑51) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 3,806,432 | 0 | A | C | 52.6% | 47.8 / 67.6 | 60 | T114T (ACA→ACC) | coaBC | bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate‑‑cysteine ligase CoaBC |
| * | NZ_CP009273 | 3,214,126 | 0 | T | C | 52.2% | 16.5 / 32.0 | 23 | I425T (ATC→ACC) | ygjG | putrescine aminotransferase |
| Marginal new junction evidence (lowest skew 10 of 19 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 3000957 = | 51 (0.930) | 5 (0.110) | 5/134 | 2.9 | 11.7% | coding (89/1197 nt) | dpaL | diaminopropionate ammonia‑lyase |
| ? | NZ_CP009273 | 3000973 = | 34 (0.760) | coding (105/1197 nt) | dpaL | diaminopropionate ammonia‑lyase | |||||
| * | ? | NZ_CP009273 | 3613238 = | NA (NA) | 5 (0.100) | 5/148 | 3.2 | 100% | coding (687/4236 nt) | rhsB | rhs element protein RhsB |
| ? | NZ_CP009273 | 3613252 = | 0 (0.000) | coding (701/4236 nt) | rhsB | rhs element protein RhsB | |||||
| * | ? | NZ_CP009273 | 1203246 = | 60 (1.090) | 4 (0.090) | 4/134 | 3.3 | 9.7% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 26 (0.580) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | = 2502173 | 36 (0.650) | 4 (0.080) | 4/146 | 3.5 | 10.4% | coding (733/966 nt) | glk | glucokinase |
| ? | NZ_CP009273 | = 2502211 | 37 (0.760) | coding (695/966 nt) | glk | glucokinase | |||||
| * | ? | NZ_CP009273 | 1040657 = | 42 (0.760) | 4 (0.080) | 4/148 | 3.5 | 9.6% | coding (603/1140 nt) | gfcE | polysaccharide export protein |
| ? | NZ_CP009273 | 1040766 = | 38 (0.770) | coding (494/1140 nt) | gfcE | polysaccharide export protein | |||||
| * | ? | NZ_CP009273 | = 1238050 | 36 (0.650) | 3 (0.070) | 3/130 | 3.6 | 8.5% | coding (487/915 nt) | ldcA | muramoyltetrapeptide carboxypeptidase |
| ? | NZ_CP009273 | = 1238032 | 36 (0.830) | coding (505/915 nt) | ldcA | muramoyltetrapeptide carboxypeptidase | |||||
| * | ? | NZ_CP009273 | 1238033 = | 36 (0.650) | 3 (0.070) | 3/130 | 3.6 | 8.5% | coding (504/915 nt) | ldcA | muramoyltetrapeptide carboxypeptidase |
| ? | NZ_CP009273 | 1238051 = | 36 (0.830) | coding (486/915 nt) | ldcA | muramoyltetrapeptide carboxypeptidase | |||||
| * | ? | NZ_CP009273 | = 3935344 | NA (NA) | 4 (0.080) | 4/156 | 3.7 | NA | noncoding (177/1542 nt) | BW25113_RS19520 | 16S ribosomal RNA |
| ? | NZ_CP009273 | = 4029052 | NA (NA) | noncoding (162/1542 nt) | BW25113_RS19980 | 16S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | = 3935334 | NA (NA) | 4 (0.080) | 4/156 | 3.7 | NA | noncoding (167/1542 nt) | BW25113_RS19520 | 16S ribosomal RNA |
| ? | NZ_CP009273 | = 4029062 | NA (NA) | noncoding (172/1542 nt) | BW25113_RS19980 | 16S ribosomal RNA | |||||
| * | ? | NZ_CP009273 | 3421945 = | NA (NA) | 4 (0.080) | 4/156 | 3.7 | NA | noncoding (177/1542 nt) | BW25113_RS17000 | 16S ribosomal RNA |
| ? | NZ_CP009273 | 3421960 = | NA (NA) | noncoding (162/1542 nt) | BW25113_RS17000 | 16S ribosomal RNA | |||||