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 29 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,604,344 | 0 | C | T | 35.3% | 162.8 / 75.2 | 116 | S62F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator BglJ |
| * | NC_000913 | 1,911,754 | 0 | T | G | 33.3% | 70.5 / 10.4 | 45 | T275P (ACC→CCC) | htpX | zinc dependent endoprotease |
| * | NC_000913 | 1,825,061 | 0 | G | A | 32.6% | 84.4 / 21.5 | 49 | intergenic (‑124/+79) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| * | NC_000913 | 3,206,435 | 0 | C | T | 29.2% | 76.4 / 26.4 | 48 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha |
| * | NC_000913 | 501,572 | 0 | A | C | 29.1% | 109.0 / 16.1 | 55 | V556G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 4,296,060 | 0 | C | T | 29.1% | 206.5 / 83.2 | 110 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 3,556,205 | 0 | A | C | 28.9% | 73.8 / 11.1 | 38 | S215R (AGT→AGG) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 501,575 | 0 | A | C | 28.6% | 112.8 / 16.9 | 56 | V555G (GTG→GGG) | ybaL | putative transporter YbaL |
| * | NC_000913 | 1,775,467 | 0 | A | C | 28.6% | 125.8 / 11.4 | 63 | intergenic (+23/‑120) | aroD/ydiF | 3‑dehydroquinate dehydratase/putative acetate‑CoA transferase |
| * | NC_000913 | 501,564 | 0 | A | C | 28.3% | 96.6 / 27.2 | 53 | *559E (TAA→GAA) | ybaL | putative transporter YbaL |
| * | NC_000913 | 3,556,207 | 0 | T | C | 27.5% | 66.7 / 15.9 | 40 | S215G (AGT→GGT) ‡ | rtcA | RNA 3'‑terminal phosphate cyclase |
| * | NC_000913 | 4,568,504 | 0 | T | G | 27.1% | 325.4 / 26.6 | 170 | T6P (ACC→CCC) | mdtM | multidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter |
| * | NC_000913 | 753,125 | 0 | T | A | 26.7% | 164.2 / 33.1 | 76 | intergenic (‑330/+60) | ybgD/gltA | putative fimbrial protein YbgD/citrate synthase |
| * | NC_000913 | 650,809 | 0 | T | G | 26.2% | 156.2 / 22.3 | 80 | T350P (ACC→CCC) | citC | citrate lyase synthetase |
| * | NC_000913 | 445,558 | 0 | A | C | 26.1% | 91.7 / 14.9 | 46 | V370G (GTA→GGA) | yajR | putative major facilitator superfamily transport protein YajR |
| * | NC_000913 | 1,550,663 | 0 | A | C | 25.9% | 169.5 / 22.8 | 81 | N68T (AAC→ACC) | fdnH | formate dehydrogenase N subunit beta |
| * | NC_000913 | 1,068,173 | 0 | T | G | 25.3% | 184.6 / 23.3 | 87 | G31G (GGT→GGG) | ymdF | conserved protein YmdF |
| * | NC_000913 | 3,926,366 | 0 | A | C | 25.0% | 263.2 / 32.2 | 124 | G30G (GGT→GGG) | mioC | flavoprotein MioC |
| * | NC_000913 | 4,111,747 | 0 | G | T | 24.5% | 159.8 / 24.1 | 53 | N156K (AAC→AAA) | yiiQ | DUF1454 domain‑containing protein YiiQ |
| * | NC_000913 | 4,429,984 | 0 | T | G | 24.1% | 177.0 / 24.0 | 79 | L41V (TTG→GTG) | cycA | serine/alanine/glycine/cycloserine:H(+)symporter |
| 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 | = 274705 | NA (NA) | 3 (0.030) | 3/270 | 8.5 | NA | noncoding (445/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | 274710 = | NA (NA) | noncoding (440/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 4512189 | 125 (1.070) | 3 (0.030) | 3/274 | 8.6 | 2.5% | coding (226/957 nt) | fecD | ferric citrate ABC transporter membrane subunit FecD |
| ? | NC_000913 | 4512194 = | 114 (0.980) | coding (221/957 nt) | fecD | ferric citrate ABC transporter membrane subunit FecD | |||||
| * | ? | NC_000913 | = 94875 | 103 (0.880) | 3 (0.030) | 3/272 | 8.6 | 2.9% | coding (226/1359 nt) | murF | D‑alanyl‑D‑alanine‑adding enzyme |
| ? | NC_000913 | 94879 = | 102 (0.880) | coding (230/1359 nt) | murF | D‑alanyl‑D‑alanine‑adding enzyme | |||||