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 | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 45.8% | 48.4 / 44.7 | 59 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 4,542,376 | 0 | C | T | 36.9% | 82.9 / 84.5 | 84 | Q114* (CAG→TAG) | fimE | regulator for fimA |
| * | NC_000913 | 3,206,435 | 0 | C | T | 36.0% | 28.9 / 12.8 | 25 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 4,296,060 | 0 | C | T | 32.9% | 102.9 / 63.3 | 73 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,434,642 | 0 | G | A | 32.6% | 246.0 / 128.3 | 144 | intergenic (‑236/+316) | ynaM/ttcC | Rac prophage; protein YnaM/putative tRNA 2‑thiocytidine (s(2)C32) synthase |
| * | NC_000913 | 4,111,747 | 0 | G | T | 31.0% | 61.9 / 10.6 | 29 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 2,195,815 | 0 | T | C | 30.8% | 81.5 / 54.0 | 65 | F506L (TTC→CTC) | metG | methionine‑‑tRNA ligase |
| * | NC_000913 | 501,564 | 0 | A | C | 28.1% | 60.0 / 12.0 | 32 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 753,125 | 0 | T | A | 27.1% | 131.9 / 22.4 | 59 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 3,240,985 | 0 | T | G | 26.9% | 107.0 / 19.2 | 53 | S348A (TCT→GCT) | sstT | serine/threonine:Na(+) symporter |
| * | NC_000913 | 2,478,011 | 0 | T | C | 26.7% | 93.1 / 42.2 | 60 | I55I (ATT→ATC) | dsdX | D‑serine transporter |
| * | NC_000913 | 3,740,909 | 0 | T | G | 25.8% | 145.0 / 13.3 | 66 | V402G (GTG→GGG) | avtA | valine‑‑pyruvate aminotransferase |
| * | NC_000913 | 266,009 | 0 | A | C | 23.3% | 141.9 / 10.2 | 60 | F27V (TTC→GTC) | ykfB | CP4‑6 prophage; protein YkfB |
| * | NC_000913 | 1,491,103 | 0 | A | C | 22.4% | 151.7 / 11.4 | 67 | T68P (ACC→CCC) | cybB | cytochrome b561 |
| * | NC_000913 | 4,442,146 | 0 | A | G | 22.1% | 140.5 / 12.8 | 68 | S11P (TCC→CCC) | msrA | methionine sulfoxide reductase A |
| 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 | = 4542690 | 44 (0.620) | 9 (0.140) | 9/258 | 4.3 | 17.6% | intergenic (+57/‑425) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit |
| ? | NC_000913 | = 4542986 | 43 (0.650) | intergenic (+353/‑129) | fimE/fimA | regulator for fimA/type 1 fimbriae major subunit | |||||
| * | ? | NC_000913 | 2207308 = | 94 (1.330) | 4 (0.060) | 3/260 | 6.8 | 5.4% | coding (1614/2280 nt) | yehM | putative YehN |
| ? | NC_000913 | 2207445 = | 53 (0.800) | coding (1751/2280 nt) | yehM | putative YehN | |||||
| * | ? | NC_000913 | = 3456241 | 111 (1.570) | 3 (0.040) | 3/268 | 6.9 | 2.7% | coding (664/816 nt) | gspC | Type II secretion system protein GspC |
| ? | NC_000913 | 3456246 = | 109 (1.590) | coding (669/816 nt) | gspC | Type II secretion system protein GspC | |||||
| * | ? | NC_000913 | = 66122 | 100 (1.420) | 3 (0.040) | 3/274 | 7.0 | 3.0% | coding (429/696 nt) | araD | L‑ribulose‑5‑phosphate 4‑epimerase AraD |
| ? | NC_000913 | 66126 = | 97 (1.380) | coding (425/696 nt) | araD | L‑ribulose‑5‑phosphate 4‑epimerase AraD | |||||