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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 161,056 | 0 | C | G | 57.1% | 1.3 / 14.3 | 14 | intergenic (+35/‑161) | hrpB/mrcB | putative ATP‑dependent helicase/fused glycosyl transferase and transpeptidase |
| * | CP009273 | 1,703,038 | 0 | C | T | 26.1% | 35.4 / 12.6 | 23 | A621A (GCC→GCT) | rsxC | SoxR iron‑sulfur cluster reduction factor component; putative membrane‑associated NADH oxidoreductase of electron transport complex |
| * | CP009273 | 4,165,449 | 0 | C | T | 24.0% | 101.8 / 30.2 | 50 | noncoding (50/85 nt) | tyrU | tRNA‑Tyr |
| * | CP009273 | 4,165,450 | 0 | A | C | 24.0% | 106.0 / 22.9 | 50 | noncoding (51/85 nt) | tyrU | tRNA‑Tyr |
| * | CP009273 | 1,282,439 | 0 | A | G | 23.3% | 77.3 / 23.0 | 45 | intergenic (+457/+83) | narI/rttR | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/rtT sRNA, processed from tyrT transcript |
| * | CP009273 | 615,792 | 0 | C | A | 20.5% | 72.7 / 17.4 | 39 | G285W (GGG→TGG) | fepG | iron‑enterobactin transporter subunit |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP009273 | = 2811007 | 34 (1.010) | 3 (0.090) | 3/262 | 2.8 | 9.4% | intergenic (‑145/+136) | yqaB/argQ | fructose‑1‑P and 6‑phosphogluconate phosphatase/tRNA‑Arg |
| ? | CP009273 | 2811830 = | 25 (0.770) | intergenic (‑197/+2) | argY/argV | tRNA‑Arg/tRNA‑Arg | |||||
| * | ? | CP009273 | = 2554285 | 48 (1.430) | 3 (0.090) | 3/258 | 2.8 | 5.9% | intergenic (+28/‑442) | yffL/yffM | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| ? | CP009273 | 3408515 = | 50 (1.560) | coding (124/3105 nt) | acrF | multidrug efflux system protein | |||||
| * | ? | CP009273 | 3670102 = | 44 (1.310) | 5 (0.150) | 3/266 | 2.9 | 10.3% | coding (1609/2061 nt) | yhjG | putative inner membrane‑anchored periplasmic AsmA family protein |
| ? | CP009273 | = 4158397 | NA (NA) | intergenic (+22/‑172) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA of rrnB operon | |||||
| * | ? | CP009273 | 2691504 = | 24 (0.710) | 3 (0.090) | 3/266 | 2.9 | 4.9% | coding (406/636 nt) | pgpC | phosphatidylglycerophosphatase C, membrane bound |
| ? | CP009273 | = 2786410 | 92 (2.780) | coding (317/1281 nt) | gabT | 4‑aminobutyrate aminotransferase, PLP‑dependent | |||||
| * | ? | CP009273 | 1948720 = | NA (NA) | 3 (0.090) | 3/266 | 2.9 | 6.7% | noncoding (35/98 nt) | RIP139 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site | RIP139 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site |
| ? | CP009273 | = 4073414 | 42 (1.270) | noncoding (35/98 nt) | REP297 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP297 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | CP009273 | 1337020 = | 51 (1.520) | 5 (0.150) | 3/268 | 2.9 | 10.0% | coding (106/327 nt) | yciH | initiation factor function partial mimic, SUI1 family |
| ? | CP009273 | = 1960708 | 39 (1.170) | coding (587/645 nt) | cheZ | chemotaxis regulator, protein phosphatase for CheY | |||||
| * | ? | CP009273 | 272923 = | 48 (1.430) | 3 (0.090) | 3/268 | 2.9 | 5.3% | coding (498/933 nt) | mmuM | CP4‑6 prophage; S‑methylmethionine:homocysteine methyltransferase |
| ? | CP009273 | = 273126 | 60 (1.800) | coding (701/933 nt) | mmuM | CP4‑6 prophage; S‑methylmethionine:homocysteine methyltransferase | |||||
| * | ? | CP009273 | 221063 = | NA (NA) | 3 (0.090) | 3/268 | 2.9 | 8.9% | noncoding (806/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | CP009273 | = 1244998 | 31 (0.920) | coding (216/633 nt) | dhaL | dihydroxyacetone kinase, C‑terminal domain | |||||