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 46 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,738,448 | 0 | A | C | 70.8% | ‑5.8 / 15.5 | 24 | V84G (GTG→GGG) | trmD | tRNA (guanosine(37)‑N1)‑methyltransferase TrmD |
| * | NZ_CP009273 | 2,334,242 | 0 | T | C | 62.5% | ‑0.6 / 11.6 | 16 | Q1136R (CAG→CGG) | yfaL | AIDA‑I family autotransporter adhesin YfaL/EhaC |
| * | NZ_CP009273 | 3,032,398 | 0 | A | C | 62.5% | 8.9 / 19.4 | 24 | G235G (GGT→GGG) | xerD | site‑specific tyrosine recombinase XerD |
| * | NZ_CP009273 | 244,969 | 0 | A | C | 61.5% | 5.2 / 10.6 | 13 | pseudogene (1589/1713 nt) | BW25113_RS01160 | flagellar biosynthesis protein FlhA |
| * | NZ_CP009273 | 1,906,011 | 0 | T | G | 61.1% | 9.9 / 16.9 | 18 | T275P (ACC→CCC) | htpX | protease HtpX |
| * | NZ_CP009273 | 4,594,161 | 0 | C | T | 60.6% | ‑3.3 / 32.1 | 33 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 4,594,167 | 0 | C | T | 60.6% | ‑3.0 / 35.9 | 33 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional activator BglJ |
| * | NZ_CP009273 | 1,118,857 | 0 | T | G | 60.0% | 2.7 / 11.8 | 15 | intergenic (‑128/+6) | yceB/grxB | lipoprotein/glutaredoxin 2 |
| * | NZ_CP009273 | 56,379 | 0 | T | G | 59.5% | 8.2 / 35.1 | 37 | Y244S (TAC→TCC) | lptD | LPS assembly protein LptD |
| * | NZ_CP009273 | 4,254,020 | 0 | A | G | 57.9% | 8.8 / 16.1 | 19 | I47T (ATC→ACC) | qorA | quinone oxidoreductase |
| * | NZ_CP009273 | 353,601 | 0 | C | A | 55.6% | ‑3.4 / 16.7 | 18 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| * | NZ_CP009273 | 70,068 | 0 | A | C | 54.5% | 14.3 / 25.8 | 22 | V314G (GTA→GGA) | thiP | thiamine/thiamine pyrophosphate ABC transporter permease ThiP |
| * | NZ_CP009273 | 653,132 | 0 | A | C | 54.5% | 6.4 / 10.3 | 11 | V88G (GTG→GGG) | crcB | fluoride efflux transporter CrcB |
| * | NZ_CP009273 | 765,670 | 0 | G | T | 53.8% | 7.0 / 14.6 | 13 | S746I (AGT→ATT) | mngB | mannosylglycerate hydrolase |
| * | NZ_CP009273 | 832,048 | 0 | T | G | 53.8% | 8.3 / 13.7 | 13 | V81G (GTC→GGC) | hcxB | hydroxycarboxylate dehydrogenase HcXB |
| * | NZ_CP009273 | 172,755 | 0 | A | G | 53.6% | 16.3 / 31.2 | 29 | T388A (ACG→GCG) | clcA | H(+)/Cl(‑) exchange transporter ClcA |
| * | NZ_CP009273 | 630,548 | 0 | A | T | 53.3% | 3.1 / 17.5 | 15 | D95E (GAT→GAA) | ybdM | ParB/RepB/Spo0J family partition protein |
| * | NZ_CP009273 | 711,081 | 0 | A | C | 53.3% | 9.3 / 13.9 | 15 | T72P (ACC→CCC) | BW25113_RS03560 | lipoprotein |
| * | NZ_CP009273 | 807,177 | 0 | T | G | 53.3% | 8.6 / 14.3 | 16 | V67G (GTG→GGG) | bioC | malonyl‑ACP O‑methyltransferase BioC |
| * | NZ_CP009273 | 1,548,257 | 0 | T | G | 52.9% | 15.3 / 17.7 | 17 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
| 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 | 3920778 = | 24 (0.880) | 3 (0.130) | 3/144 | 2.0 | 12.3% | coding (264/993 nt) | asnA | aspartate‑‑ammonia ligase |
| ? | NZ_CP009273 | 3920817 = | 22 (0.940) | coding (303/993 nt) | asnA | aspartate‑‑ammonia ligase | |||||
| * | ? | NZ_CP009273 | 331139 = | 85 (3.110) | 4 (0.150) | 3/160 | 2.2 | 4.6% | coding (149/606 nt) | yahD | ankyrin repeat domain‑containing protein |
| ? | NZ_CP009273 | 331150 = | 85 (3.260) | coding (160/606 nt) | yahD | ankyrin repeat domain‑containing protein | |||||