mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 42 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,176,602 | 0 | C | T | 79.4% | 48.4 / 11.3 | 35 | P392P (CCC→CCT) | lolC | lipoprotein release complex ‑ inner membrane subunit |
| * | NC_000913 | 3,815,883 | 1 | . | C | 79.4% | 73.7 / 14.4 | 35 | coding (667/687 nt) | rph | truncated RNase PH |
| * | NC_000913 | 4,532,063 | 0 | C | T | 78.8% | 47.9 / 12.2 | 33 | intergenic (‑412/+374) | sgcX/yjhP | putative endoglucanase with Zn‑dependent exopeptidase domain/putative methyltransferase YjhP |
| * | NC_000913 | 4,591,930 | 0 | G | C | 75.9% | 44.9 / 16.6 | 29 | E92Q (GAG→CAG) | tsr | methyl‑accepting chemotaxis protein Tsr |
| * | NC_000913 | 2,173,364 | 0 | C | . | 75.0% | 51.1 / 24.1 | 28 | intergenic (‑491/+918) | gatD/gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| * | NC_000913 | 2,173,363 | 0 | C | . | 71.4% | 39.1 / 30.6 | 28 | intergenic (‑490/+919) | gatD/gatB | galactitol‑1‑phosphate 5‑dehydrogenase/galactitol‑specific PTS enzyme IIB component |
| * | NC_000913 | 5,067 | 0 | C | . | 66.7% | 9.3 / 17.1 | 15 | intergenic (+47/‑167) | thrC/yaaX | threonine synthase/DUF2502 domain‑containing protein YaaX |
| * | NC_000913 | 4,509,586 | 0 | A | C | 65.1% | 40.6 / 20.2 | 43 | pseudogene (108/315 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 271,817 | 0 | G | A | 48.1% | 13.2 / 61.9 | 55 | pseudogene (54/427 nt) | insN | IS911A regulator fragment |
| * | NC_000913 | 271,822 | 0 | G | A | 47.3% | 14.5 / 62.6 | 55 | pseudogene (59/427 nt) | insN | IS911A regulator fragment |
| * | NC_000913 | 271,901 | 0 | G | A | 46.8% | 19.8 / 46.5 | 48 | pseudogene (138/427 nt) | insN | IS911A regulator fragment |
| * | NC_000913 | 271,834 | 0 | C | T | 46.2% | 12.7 / 54.6 | 52 | pseudogene (71/427 nt) | insN | IS911A regulator fragment |
| * | NC_000913 | 271,838 | 0 | T | A | 46.2% | 24.4 / 65.5 | 52 | pseudogene (75/427 nt) | insN | IS911A regulator fragment |
| * | NC_000913 | 271,876 | 0 | A | G | 45.8% | 11.4 / 59.1 | 48 | pseudogene (113/427 nt) | insN | IS911A regulator fragment |
| * | NC_000913 | 271,943 | 0 | A | G | 41.0% | 23.9 / 36.2 | 39 | pseudogene (180/427 nt) | insN | IS911A regulator fragment |
| * | NC_000913 | 271,946 | 0 | G | A | 41.0% | 22.1 / 37.5 | 39 | pseudogene (183/427 nt) | insN | IS911A regulator fragment |
| * | NC_000913 | 4,509,428 | 0 | A | G | 38.5% | 25.7 / 47.2 | 54 | pseudogene (420/471 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,037,496 | 0 | A | T | 36.6% | 41.1 / 41.2 | 43 | intergenic (+161/‑23) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA |
| * | NC_000913 | 4,509,416 | 0 | T | C | 36.2% | 36.9 / 47.9 | 58 | pseudogene (408/471 nt) | insO | IS911B regulator fragment |
| * | NC_000913 | 4,509,487 | 0 | A | G | 35.2% | 40.9 / 41.6 | 54 | pseudogene (9/315 nt) | insO | IS911B regulator fragment |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 2812450 | 31 (1.060) | 3 (0.100) | 3/478 | 2.7 | 9.0% | coding (1024/1173 nt) | emrA | multidrug efflux pump membrane fusion protein EmrA |
| ? | NC_000913 | = 2812532 | 30 (1.050) | coding (1106/1173 nt) | emrA | multidrug efflux pump membrane fusion protein EmrA | |||||
| * | ? | NC_000913 | 3452998 = | 40 (1.370) | 3 (0.100) | 3/480 | 2.8 | 6.6% | coding (273/312 nt) | rpsJ | 30S ribosomal subunit protein S10 |
| ? | NC_000913 | 3453250 = | 46 (1.600) | coding (21/312 nt) | rpsJ | 30S ribosomal subunit protein S10 | |||||
| * | ? | NC_000913 | 387208 = | 43 (1.470) | 3 (0.100) | 3/482 | 2.8 | 6.6% | coding (238/828 nt) | tauC | taurine ABC transporter membrane subunit |
| ? | NC_000913 | = 2730110 | NA (NA) | noncoding (1048/1542 nt) | rrsG | 16S ribosomal RNA | |||||