mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 47 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,228,275 | 0 | T | C | 41.7% | 44.9 / 15.4 | 48 | intergenic (‑1005/‑707) | yohF/yohP | putative oxidoreductase YohF/putative membrane protein YohP |
| * | NC_000913 | 2,326,450 | 0 | T | G | 40.4% | 82.2 / 12.6 | 53 | G114G (GGT→GGG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_000913 | 2,228,239 | 0 | G | C | 35.3% | 62.4 / 14.0 | 51 | intergenic (‑969/‑743) | yohF/yohP | putative oxidoreductase YohF/putative membrane protein YohP |
| * | NC_000913 | 2,096,090 | 0 | A | G | 34.4% | 125.8 / 11.8 | 64 | I83V (ATT→GTT) | hisF | imidazole glycerol phosphate synthase subunit HisF |
| * | NC_000913 | 179,026 | 0 | A | C | 34.2% | 149.8 / 11.5 | 84 | V43G (GTT→GGT) | mtn | 5'‑methylthioadenosine/S‑adenosylhomocysteine nucleosidase |
| * | NC_000913 | 4,296,268 | 0 | T | C | 34.2% | 47.7 / 32.8 | 41 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 954,388 | 0 | C | T | 33.3% | 43.8 / 11.4 | 42 | A27T (GCA→ACA) | focA | formate channel FocA |
| * | NC_000913 | 4,604,350 | 0 | C | T | 32.6% | 77.8 / 15.7 | 49 | S64F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 3,465,167 | 0 | G | T | 31.1% | 67.3 / 17.5 | 46 | C29F (TGT→TTT) | gspM | Type II secretion system protein GspM |
| * | NC_000913 | 3,497,728 | 0 | A | G | 30.3% | 148.9 / 21.3 | 76 | G242G (GGA→GGG) | nirC | nitrite transporter NirC |
| * | NC_000913 | 1,435,718 | 0 | G | A | 30.0% | 93.6 / 16.1 | 51 | intergenic (‑99/+42) | uspF/ompN | universal stress protein F/outer membrane porin N |
| * | NC_000913 | 2,434,882 | 0 | T | G | 29.6% | 187.2 / 12.2 | 82 | Y252S (TAC→TCC) | truA | tRNA pseudouridine(38‑40) synthase |
| * | NC_000913 | 1,701,303 | 0 | T | C | 29.3% | 143.6 / 19.4 | 77 | I116T (ATC→ACC) | malY | negative regulator of MalT activity/cystathionine beta‑lyase |
| * | NC_000913 | 3,556,207 | 0 | T | C | 27.9% | 132.9 / 14.6 | 61 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 1,822,172 | 0 | C | T | 27.6% | 112.4 / 18.5 | 58 | D29N (GAC→AAC) | osmE | osmotically‑inducible lipoprotein OsmE |
| * | NC_000913 | 213,341 | 0 | A | G | 27.4% | 141.5 / 13.0 | 62 | G337G (GGA→GGG) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | NC_000913 | 1,383,722 | 0 | G | A | 27.3% | 75.2 / 10.1 | 44 | F80F (TTC→TTT) | ycjW | DNA‑binding transcriptional repressor YcjW |
| * | NC_000913 | 2,878,947 | 0 | C | T | 26.9% | 98.2 / 10.1 | 52 | E276K (GAA→AAA) | cas1 | multifunctional nuclease Cas1 |
| * | NC_000913 | 4,604,344 | 0 | C | T | 26.5% | 89.5 / 12.9 | 49 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,435,727 | 0 | G | A | 26.4% | 108.8 / 20.2 | 53 | intergenic (‑108/+33) | uspF/ompN | universal stress protein F/outer membrane porin N |
| 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 | 1411899 = | 69 (0.880) | 6 (0.090) | 6/442 | 6.0 | 9.0% | coding (50/936 nt) | ttcA | tRNA cytosine(32) 2‑sulfurtransferase TtcA |
| ? | NC_000913 | = 1434958 | 60 (0.850) | intergenic (‑552/+227) | ynaM/uspF | protein YnaM/universal stress protein F | |||||
| * | ? | NC_000913 | 2057851 = | 43 (0.550) | 3 (0.040) +C |
3/492 | 8.0 | 5.5% | intergenic (+277/+176) | yeeN/asnW | putative transcriptional regulator YeeN/tRNA‑Asn |
| ? | NC_000913 | = 2100961 | 61 (0.780) | coding (308/1407 nt) | gnd | 6‑phosphogluconate dehydrogenase, decarboxylating | |||||
| * | ? | NC_000913 | 972454 = | 100 (1.270) | 3 (0.040) | 3/494 | 8.1 | 3.0% | coding (703/894 nt) | ycbJ | putative phosphotransferase YcbJ |
| ? | NC_000913 | 3140048 = | 96 (1.220) | coding (271/342 nt) | hybF | hydrogenase maturation protein HybF | |||||
| * | ? | NC_000913 | = 961601 | 97 (1.230) | 3 (0.040) | 3/494 | 8.1 | 3.0% | coding (401/684 nt) | cmk | cytidylate kinase |
| ? | NC_000913 | = 2832103 | 96 (1.220) | coding (187/1515 nt) | norR | DNA‑binding transcriptional dual regulator NorR | |||||
| * | ? | NC_000913 | 498700 = | 82 (1.040) | 3 (0.040) | 3/494 | 8.1 | 4.1% | coding (646/963 nt) | hemH | ferrochelatase |
| ? | NC_000913 | = 3222259 | 57 (0.720) | coding (794/984 nt) | ebgR | DNA‑binding transcriptional repressor EbgR | |||||
| * | ? | NC_000913 | = 232715 | 69 (0.880) | 3 (0.040) | 3/494 | 8.1 | 3.5% | coding (1241/1359 nt) | mltD | membrane‑bound lytic murein transglycosylase D |
| ? | NC_000913 | = 3844758 | 97 (1.230) | coding (795/1767 nt) | adeD | adenine deaminase | |||||