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 194 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,819,318 | 0 | G | A | 62.1% | ‑4.1 / 27.2 | 29 | intergenic (‑124/+79) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | NZ_CP009273 | 4,225,954 | 0 | A | G | 61.1% | ‑1.2 / 13.4 | 18 | S41G (AGT→GGT) ‡ | yjbE | exopolysaccharide production protein YjbE |
| * | NZ_CP009273 | 276,800 | 0 | A | C | 60.0% | 11.4 / 27.9 | 36 | Y299D (TAT→GAT) | yagA | IS481‑like element ISEc19 family transposase |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 58.2% | 0.9 / 75.1 | 67 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 2,380,341 | 0 | G | A | 56.4% | ‑1.8 / 49.9 | 39 | intergenic (+31/‑72) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 1,819,313 | 0 | G | A | 55.6% | 3.5 / 29.4 | 27 | intergenic (‑119/+84) | ves/spy | environmental stress‑induced protein Ves/ATP‑independent periplasmic protein‑refolding chaperone Spy |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 54.5% | 15.4 / 79.5 | 67 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 54.2% | 29.5 / 55.2 | 59 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 2,380,357 | 0 | A | T | 54.0% | 28.6 / 54.7 | 37 | intergenic (+47/‑56) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 585,386 | 0 | A | G | 53.8% | 13.8 / 32.0 | 26 | L342P (CTC→CCC) | nfrA | bacteriophage adsorption protein NfrA |
| * | NZ_CP009273 | 2,380,362 | 0 | C | T | 53.8% | 10.6 / 56.4 | 39 | intergenic (+52/‑51) | yfbL/yfbM | M28 family metallopeptidase/YfbM family protein |
| * | NZ_CP009273 | 38,943 | 0 | T | G | 53.1% | 11.8 / 28.6 | 32 | Y58S (TAC→TCC) | caiB | L‑carnitine CoA‑transferase |
| * | NZ_CP009273 | 711,081 | 0 | A | C | 52.9% | 22.5 / 31.6 | 34 | T72P (ACC→CCC) | BW25113_RS03560 | lipoprotein |
| * | NZ_CP009273 | 2,428,361 | 0 | T | G | 52.6% | 5.3 / 15.4 | 19 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase TruA |
| * | NZ_CP009273 | 4,225,956 | 0 | T | G | 52.6% | 5.4 / 13.1 | 19 | S41R (AGT→AGG) ‡ | yjbE | exopolysaccharide production protein YjbE |
| * | NZ_CP009273 | 890,386 | 0 | A | C | 52.4% | 14.6 / 17.4 | 22 | intergenic (+34/‑61) | potF/potG | spermidine/putrescine ABC transporter substrate‑binding protein PotF/putrescine ABC transporter ATP‑binding subunit PotG |
| * | NZ_CP009273 | 1,154,068 | 0 | T | G | 52.0% | 12.1 / 21.3 | 26 | G248G (GGT→GGG) | ptsG | PTS glucose transporter subunit IIBC |
| * | NZ_CP009273 | 4,058,958 | 0 | G | A | 51.9% | 25.1 / 69.5 | 52 | L57L (CTG→TTG) | yihO | MFS transporter |
| * | NZ_CP009273 | 585,390 | 0 | T | G | 51.8% | 1.9 / 24.5 | 27 | T341P (ACC→CCC) | nfrA | bacteriophage adsorption protein NfrA |
| * | NZ_CP009273 | 2,738,448 | 0 | A | C | 51.8% | 8.5 / 25.2 | 27 | V84G (GTG→GGG) | trmD | tRNA (guanosine(37)‑N1)‑methyltransferase TrmD |
| Marginal new junction evidence (lowest skew 10 of 13 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NZ_CP009273 | 1203246 = | 39 (0.650) | 6 (0.120) | 6/132 | 2.5 | 17.3% | coding (290/630 nt) | BW25113_RS05990 | hypothetical protein |
| ? | NZ_CP009273 | 1205075 = | 26 (0.540) | coding (40/540 nt) | BW25113_RS06005 | phage tail protein | |||||
| * | ? | NZ_CP009273 | 3135029 = | 80 (1.340) | 3 (0.060) | 3/128 | 3.4 | 4.5% | coding (1320/1704 nt) | hybC | hydrogenase 2 large subunit |
| ? | NZ_CP009273 | 3135047 = | 66 (1.420) | coding (1302/1704 nt) | hybC | hydrogenase 2 large subunit | |||||
| * | ? | NZ_CP009273 | 670004 = | 51 (0.850) | 3 (0.060) | 3/136 | 3.5 | 6.4% | coding (236/2583 nt) | leuS | leucine‑‑tRNA ligase |
| ? | NZ_CP009273 | 670018 = | 45 (0.910) | coding (222/2583 nt) | leuS | leucine‑‑tRNA ligase | |||||
| * | ? | NZ_CP009273 | 3950787 = | 44 (0.740) | 4 (0.080) | 3/144 | 3.6 | 9.5% | coding (394/894 nt) | ilvY | HTH‑type transcriptional activator IlvY |
| ? | NZ_CP009273 | 3950869 = | 38 (0.730) | coding (312/894 nt) | ilvY | HTH‑type transcriptional activator IlvY | |||||
| * | ? | NZ_CP009273 | = 3769084 | 72 (1.210) | 4 (0.080) | 3/144 | 3.6 | 5.2% | coding (153/588 nt) | mtlR | mannitol operon repressor MtlR |
| ? | NZ_CP009273 | = 3769168 | 82 (1.570) | coding (237/588 nt) | mtlR | mannitol operon repressor MtlR | |||||
| * | ? | NZ_CP009273 | = 3572747 | 110 (1.840) | 3 (0.060) | 3/144 | 3.6 | 3.2% | coding (259/696 nt) | yhhW | quercetin 2,3‑dioxygenase |
| ? | NZ_CP009273 | = 3572830 | 84 (1.600) | coding (176/696 nt) | yhhW | quercetin 2,3‑dioxygenase | |||||
| * | ? | NZ_CP009273 | = 3341202 | 70 (1.170) | 3 (0.060) | 3/144 | 3.6 | 5.7% | coding (729/855 nt) | rapZ | RNase adapter RapZ |
| ? | NZ_CP009273 | = 3341326 | 38 (0.730) | coding (853/855 nt) coding (2/273 nt) |
rapZ npr |
RNase adapter RapZ PTS phosphocarrier protein NPr |
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| * | ? | NZ_CP009273 | = 3375206 | 57 (0.960) | 3 (0.060) | 3/146 | 3.7 | 5.4% | coding (1105/1368 nt) | degQ | serine endoprotease DegQ |
| ? | NZ_CP009273 | = 3375218 | 54 (1.020) | coding (1117/1368 nt) | degQ | serine endoprotease DegQ | |||||
| * | ? | NZ_CP009273 | = 3031193 | 35 (0.590) | 3 (0.060) | 3/148 | 3.7 | 8.6% | coding (273/1734 nt) | recJ | single‑stranded‑DNA‑specific exonuclease RecJ |
| ? | NZ_CP009273 | = 3031201 | 32 (0.590) | coding (265/1734 nt) | recJ | single‑stranded‑DNA‑specific exonuclease RecJ | |||||
| * | ? | NZ_CP009273 | 1356258 = | 37 (0.620) | 3 (0.060) | 3/146 | 3.7 | 8.3% | coding (91/558 nt) | puuR | HTH‑type transcriptional regulator PuuR |
| ? | NZ_CP009273 | 1356308 = | 33 (0.620) | coding (141/558 nt) | puuR | HTH‑type transcriptional regulator PuuR | |||||