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 | ||
| * | AP012306 | 1,091,992 | 0 | T | G | 42.1% | 381.6 / 82.9 | 260 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 35.1% | 449.2 / 62.2 | 229 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 644,417 | 0 | G | A | 34.3% | 651.1 / inf | 530 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 1,226,557 | 0 | A | G | 30.6% | 353.8 / 89.2 | 186 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 202,417 | 0 | T | G | 29.8% | 548.3 / 40.1 | 257 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 1,421,147 | 0 | T | G | 29.1% | 488.4 / 11.4 | 245 | T79P (ACC→CCC) | ydhB | predicted DNA‑binding transcriptional regulator |
| * | AP012306 | 3,527,368 | 0 | A | C | 27.1% | 615.0 / 46.8 | 251 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 800,675 | 0 | A | C | 26.8% | 509.8 / 25.3 | 213 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 2,680,345 | 0 | A | C | 25.7% | 465.4 / 41.7 | 207 | T184P (ACC→CCC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| * | AP012306 | 2,758,909 | 0 | T | G | 25.2% | 588.5 / 28.9 | 226 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 3,590,367 | 0 | A | C | 25.2% | 745.7 / 38.4 | 283 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| * | AP012306 | 406,677 | 0 | A | G | 24.4% | 492.6 / 14.0 | 197 | K294E (AAA→GAA) | hemH | ferrochelatase |
| * | AP012306 | 1,854,851 | 0 | A | C | 24.0% | 768.2 / 55.0 | 296 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 3,182,861 | 0 | A | C | 23.6% | 327.4 / 17.2 | 123 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 2,212,753 | 0 | A | C | 23.1% | 431.8 / 39.1 | 161 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| * | AP012306 | 3,938,887 | 0 | C | T | 22.3% | 545.2 / 95.9 | 224 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 2,560,243 | 0 | T | G | 22.3% | 493.7 / 23.8 | 203 | N419T (AAC→ACC) | pepP | proline aminopeptidase P II |
| * | AP012306 | 3,324,433 | 0 | T | A | 21.9% | 642.6 / 94.3 | 251 | intergenic (+2/+52) | yieF/yieG | chromate reductase, Class I, flavoprotein/predicted inner membrane protein |
| * | AP012306 | 2,714,555 | 0 | T | G | 21.9% | 706.3 / 20.2 | 279 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 1,393,379 | 0 | A | C | 21.9% | 672.5 / 36.8 | 238 | T92P (ACC→CCC) | nth | DNA glycosylase and apyrimidinic (AP) lyase |
| Marginal new junction evidence (lowest skew 10 of 141 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 997497 | 337 (1.070) | 11 (0.040) | 11/268 | 13.3 | 3.8% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 252 (0.890) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 215364 | NA (NA) | 10 (0.030) | 10/288 | 14.1 | NA | noncoding (745/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) |
| ? | AP012306 | = 215372 | NA (NA) | noncoding (753/2905 nt) | rrlH | 23S ribosomal RNA (rrlH) | |||||
| * | ? | AP012306 | = 1092512 | 377 (1.200) | 9 (0.030) | 8/258 | 14.2 | 2.8% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 289 (1.060) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 1906320 | 321 (1.020) | 8 (0.030) | 8/292 | 15.0 | 2.5% | coding (692/1689 nt) | yfaA | predicted protein |
| ? | AP012306 | = 1906331 | 321 (1.040) | coding (681/1689 nt) | yfaA | predicted protein | |||||
| * | ? | AP012306 | = 2262152 | 449 (1.430) | 7 (0.020) | 7/290 | 15.4 | 1.6% | intergenic (‑76/‑229) | yfiD/ung | pyruvate formate lyase subunit/uracil‑DNA‑glycosylase |
| ? | AP012306 | = 2262160 | 449 (1.470) | intergenic (‑84/‑221) | yfiD/ung | pyruvate formate lyase subunit/uracil‑DNA‑glycosylase | |||||
| * | ? | AP012306 | 2166807 = | 266 (0.850) | 7 (0.020) | 7/294 | 15.4 | 2.6% | intergenic (‑308/‑17) | upp/purM | uracil phosphoribosyltransferase/phosphoribosylaminoimidazole synthetase |
| ? | AP012306 | 2166823 = | 258 (0.830) | intergenic (‑324/‑1) | upp/purM | uracil phosphoribosyltransferase/phosphoribosylaminoimidazole synthetase | |||||
| * | ? | AP012306 | 1370757 = | 335 (1.070) | 6 (0.020) | 6/270 | 15.4 | 1.9% | coding (599/1176 nt) | manA | mannose‑6‑phosphate isomerase |
| ? | AP012306 | 1370771 = | 308 (1.080) | coding (613/1176 nt) | manA | mannose‑6‑phosphate isomerase | |||||
| * | ? | AP012306 | = 1092334 | 349 (1.110) | 6 (0.020) | 5/258 | 15.7 | 2.0% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 289 (1.060) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | 3026675 = | 342 (1.090) | 6 (0.020) | 6/290 | 15.8 | 1.7% | coding (130/1104 nt) | asd | aspartate‑semialdehyde dehydrogenase, NAD(P)‑binding |
| ? | AP012306 | 3026691 = | 343 (1.120) | coding (114/1104 nt) | asd | aspartate‑semialdehyde dehydrogenase, NAD(P)‑binding | |||||
| * | ? | AP012306 | = 214142 | NA (NA) | 6 (0.020) | 6/288 | 15.8 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA (rrsH) |
| ? | AP012306 | = 214154 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA (rrsH) | |||||