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 36 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 | 40.7% | 372.8 / 49.1 | 221 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 935,054 | 0 | G | T | 33.8% | 138.0 / 46.2 | 74 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 3,020,670 | 0 | T | G | 33.3% | 365.8 / 11.6 | 195 | K195N (AAA→AAC) | glgC | glucose‑1‑phosphate adenylyltransferase |
| * | AP012306 | 1,944,288 | 0 | A | C | 32.0% | 491.7 / 44.0 | 234 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 3,938,887 | 0 | C | T | 30.8% | 424.5 / 134.1 | 227 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 644,417 | 0 | G | A | 30.4% | 891.0 / inf | 569 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 1,854,851 | 0 | A | C | 29.9% | 570.6 / 70.6 | 251 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 1,128,412 | 0 | T | G | 27.3% | 797.9 / 47.3 | 326 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 2,360,048 | 0 | T | G | 27.2% | 473.4 / 11.7 | 191 | T113P (ACC→CCC) | hycB | hydrogenase 3, Fe‑S subunit |
| * | AP012306 | 3,903,791 | 0 | A | G | 26.9% | 563.7 / 79.7 | 260 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 3,372,701 | 0 | T | G | 26.6% | 132.3 / 12.1 | 64 | noncoding (54/76 nt) | gltU | tRNA‑Glu |
| * | AP012306 | 3,639,040 | 0 | T | G | 25.9% | 121.5 / 11.1 | 58 | noncoding (54/76 nt) | gltV | tRNA‑Glu |
| * | AP012306 | 472,868 | 0 | T | G | 25.6% | 552.7 / 13.1 | 203 | D435A (GAC→GCC) | cusS | sensory histidine kinase in two‑component regulatory system with CusR, senses copper ions |
| * | AP012306 | 202,417 | 0 | T | G | 25.6% | 568.6 / 41.4 | 254 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 800,675 | 0 | A | C | 25.0% | 645.2 / 26.9 | 264 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 524,297 | 0 | C | T | 23.6% | 354.5 / 43.7 | 144 | M1M (ATG→ATA) † | citD | citrate lyase, acyl carrier (gamma) subunit |
| * | AP012306 | 1,226,557 | 0 | A | G | 23.4% | 387.0 / 64.9 | 171 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 2,560,243 | 0 | T | G | 23.2% | 476.8 / 23.5 | 190 | N419T (AAC→ACC) | pepP | proline aminopeptidase P II |
| * | AP012306 | 2,558,071 | 0 | A | C | 22.9% | 589.4 / 30.3 | 231 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 2,680,345 | 0 | A | C | 22.9% | 538.6 / 28.6 | 228 | T184P (ACC→CCC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| Marginal new junction evidence (lowest skew 10 of 140 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 1092512 | 368 (1.200) | 19 (0.070) | 12/258 | 9.8 | 6.0% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 280 (1.060) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 997497 | 298 (0.980) | 13 (0.050) | 12/268 | 10.0 | 4.7% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 254 (0.930) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 2684153 | 354 (1.160) | 8 (0.030) | 8/288 | 11.5 | 2.3% | coding (40/216 nt) | rpsU | 30S ribosomal subunit protein S21 |
| ? | AP012306 | = 2684161 | 344 (1.170) | coding (48/216 nt) | rpsU | 30S ribosomal subunit protein S21 | |||||
| * | ? | AP012306 | = 2275012 | 269 (0.880) | 7 (0.020) | 7/274 | 11.7 | 2.8% | noncoding (60/76 nt) | gltW | tRNA‑Glu |
| ? | AP012306 | 3372719 = | NA (NA) | noncoding (72/76 nt) | gltU | tRNA‑Glu | |||||
| * | ? | AP012306 | = 1883833 | 409 (1.340) | 7 (0.020) | 7/274 | 11.7 | 1.9% | intergenic (‑717/‑22) | ompC/rcsD | outer membrane porin protein C/phosphotransfer intermediate protein in two‑component regulatory system with RcsBC |
| ? | AP012306 | = 1883821 | 363 (1.290) | intergenic (‑705/‑34) | ompC/rcsD | outer membrane porin protein C/phosphotransfer intermediate protein in two‑component regulatory system with RcsBC | |||||
| * | ? | AP012306 | = 1092334 | 281 (0.920) | 7 (0.030) | 6/258 | 11.8 | 2.6% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 280 (1.060) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | 1328974 = | 302 (0.990) | 7 (0.020) | 7/290 | 11.9 | 2.2% | coding (816/1188 nt) | ydeE | predicted transporter |
| ? | AP012306 | 1328990 = | 316 (1.060) | coding (832/1188 nt) | ydeE | predicted transporter | |||||
| * | ? | AP012306 | = 1178769 | 274 (0.900) | 6 (0.020) | 6/274 | 12.0 | 2.3% | coding (451/843 nt) | ycjP | predicted sugar transporter subunit |
| ? | AP012306 | = 1178757 | 253 (0.900) | coding (439/843 nt) | ycjP | predicted sugar transporter subunit | |||||
| * | ? | AP012306 | 228777 = | 369 (1.210) | 6 (0.020) | 6/278 | 12.1 | 1.7% | coding (275/771 nt) | yafV | predicted C‑N hydrolase family amidase, NAD(P)‑binding |
| ? | AP012306 | 228787 = | 358 (1.260) | coding (265/771 nt) | yafV | predicted C‑N hydrolase family amidase, NAD(P)‑binding | |||||
| * | ? | AP012306 | 1108421 = | 220 (0.720) | 6 (0.020) | 6/284 | 12.2 | 2.6% | coding (359/909 nt) | oppC | oligopeptide transporter subunit |
| ? | AP012306 | 1108462 = | 239 (0.820) | coding (400/909 nt) | oppC | oligopeptide transporter subunit | |||||