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 21 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 | 37.0% | 464.2 / 81.8 | 257 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 341,377 | 0 | T | G | 32.9% | 217.4 / 28.2 | 138 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 644,417 | 0 | G | A | 31.9% | 716.6 / inf | 499 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 1,854,851 | 0 | A | C | 29.0% | 615.1 / 70.6 | 269 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 3,182,861 | 0 | A | C | 27.7% | 295.5 / 29.6 | 130 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 1,944,288 | 0 | A | C | 27.5% | 554.4 / 48.3 | 234 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 2,212,753 | 0 | A | C | 26.5% | 489.6 / 64.3 | 204 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| * | AP012306 | 3,527,368 | 0 | A | C | 26.5% | 590.8 / 46.9 | 242 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 935,054 | 0 | G | T | 25.0% | 321.2 / 54.8 | 112 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 3,268,851 | 0 | G | A | 24.9% | 595.3 / 66.5 | 261 | S119F (TCC→TTC) | nlpA | cytoplasmic membrane lipoprotein‑28 |
| * | AP012306 | 3,938,887 | 0 | C | T | 24.6% | 517.7 / 115.6 | 232 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 2,758,909 | 0 | T | G | 24.6% | 581.9 / 16.6 | 229 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 2,714,555 | 0 | T | G | 24.5% | 742.0 / 13.1 | 306 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 1,226,557 | 0 | A | G | 23.2% | 428.6 / 72.5 | 185 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 406,677 | 0 | A | G | 23.0% | 513.3 / 25.7 | 204 | K294E (AAA→GAA) | hemH | ferrochelatase |
| * | AP012306 | 800,675 | 0 | A | C | 22.5% | 586.7 / 27.8 | 236 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 1,393,379 | 0 | A | C | 21.6% | 607.6 / 31.8 | 232 | T92P (ACC→CCC) | nth | DNA glycosylase and apyrimidinic (AP) lyase |
| * | AP012306 | 3,698,828 | 0 | T | G | 21.1% | 725.3 / 16.0 | 251 | F68V (TTT→GTT) | aphA | acid phosphatase/phosphotransferase, class B, non‑specific |
| * | AP012306 | 3,903,791 | 0 | A | G | 20.9% | 607.4 / 51.1 | 239 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 3,324,433 | 0 | T | A | 20.5% | 595.0 / 69.1 | 225 | intergenic (+2/+52) | yieF/yieG | chromate reductase, Class I, flavoprotein/predicted inner membrane protein |
| Marginal new junction evidence (lowest skew 10 of 61 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | 644310 = | 349 (1.130) | 25 (0.080) +GAG |
12/292 | 25.0 | 7.5% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 279 (0.900) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | = 3014868 | 331 (1.070) | 10 (0.040) | 10/274 | 25.3 | 3.2% | coding (930/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
| ? | AP012306 | = 3014856 | 308 (1.080) | coding (918/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding | |||||
| * | ? | AP012306 | 644310 = | 349 (1.130) | 24 (0.080) +G |
11/296 | 25.7 | 7.0% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | AP012306 | = 2073542 | 289 (0.930) | intergenic (+2/‑45) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | AP012306 | 644310 = | 349 (1.130) | 30 (0.100) +G |
9/296 | 26.9 | 8.6% | noncoding (1/76 nt) | lysQ | tRNA‑Lys |
| ? | AP012306 | = 2073541 | 293 (0.950) | intergenic (+1/‑46) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | AP012306 | = 1178769 | 264 (0.850) | 5 (0.020) | 5/274 | 28.8 | 2.0% | coding (451/843 nt) | ycjP | predicted sugar transporter subunit |
| ? | AP012306 | = 1178757 | 244 (0.860) | coding (439/843 nt) | ycjP | predicted sugar transporter subunit | |||||
| * | ? | AP012306 | 1097651 = | 322 (1.040) | 6 (0.020) | 6/292 | 28.8 | 1.9% | coding (767/909 nt) | galU | glucose‑1‑phosphate uridylyltransferase |
| ? | AP012306 | 1097667 = | 308 (1.020) | coding (783/909 nt) | galU | glucose‑1‑phosphate uridylyltransferase | |||||
| * | ? | AP012306 | = 416638 | 361 (1.170) | 5 (0.020) | 5/274 | 28.8 | 1.5% | coding (2485/2505 nt) | copA | copper transporter |
| ? | AP012306 | = 416626 | 320 (1.120) | coding (2497/2505 nt) | copA | copper transporter | |||||
| * | ? | AP012306 | 2563790 = | 368 (1.190) | 5 (0.020) | 5/282 | 29.1 | 1.4% | intergenic (+343/+46) | ygfA/serA | predicted ligase/D‑3‑phosphoglycerate dehydrogenase |
| ? | AP012306 | 2563817 = | 354 (1.210) | intergenic (+370/+19) | ygfA/serA | predicted ligase/D‑3‑phosphoglycerate dehydrogenase | |||||
| * | ? | AP012306 | 1621417 = | 262 (0.850) | 4 (0.010) | 4/266 | 29.3 | 1.7% | coding (365/1323 nt) | yebA | predicted peptidase |
| ? | AP012306 | 1621433 = | 235 (0.850) | coding (349/1323 nt) | yebA | predicted peptidase | |||||
| * | ? | AP012306 | = 3768654 | 293 (0.950) | 5 (0.020) | 5/288 | 29.4 | 1.8% | coding (973/2271 nt) | adiA | biodegradative arginine decarboxylase |
| ? | AP012306 | = 3768682 | 273 (0.910) | coding (945/2271 nt) | adiA | biodegradative arginine decarboxylase | |||||