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 27 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 | 42.2% | 402.4 / 69.5 | 252 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 3,938,887 | 0 | C | T | 33.0% | 313.2 / 142.5 | 188 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 800,675 | 0 | A | C | 31.5% | 506.5 / 47.2 | 254 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 644,417 | 0 | G | A | 29.7% | 793.2 / inf | 495 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 406,677 | 0 | A | G | 29.2% | 487.0 / 31.2 | 216 | K294E (AAA→GAA) | hemH | ferrochelatase |
| * | AP012306 | 1,944,288 | 0 | A | C | 27.5% | 460.1 / 43.0 | 208 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 3,527,368 | 0 | A | C | 27.0% | 624.6 / 55.0 | 267 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 341,377 | 0 | T | G | 26.9% | 225.1 / 14.9 | 120 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 1,421,147 | 0 | T | G | 26.5% | 439.6 / 16.4 | 224 | T79P (ACC→CCC) | ydhB | predicted DNA‑binding transcriptional regulator |
| * | AP012306 | 3,639,040 | 0 | T | G | 25.6% | 179.8 / 11.0 | 82 | noncoding (54/76 nt) | gltV | tRNA‑Glu |
| * | AP012306 | 1,226,557 | 0 | A | G | 25.0% | 399.0 / 63.5 | 180 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 2,714,555 | 0 | T | G | 25.0% | 740.9 / 27.5 | 308 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 935,054 | 0 | G | T | 24.7% | 267.3 / 36.0 | 93 | intergenic (+24/‑1406) | putP/ycdO | proline:sodium symporter/conserved protein |
| * | AP012306 | 3,324,433 | 0 | T | A | 24.5% | 509.0 / 83.7 | 212 | intergenic (+2/+52) | yieF/yieG | chromate reductase, Class I, flavoprotein/predicted inner membrane protein |
| * | AP012306 | 2,857,911 | 0 | A | C | 24.4% | 449.3 / 14.2 | 172 | K180N (AAA→AAC) | aaeR | predicted DNA‑binding transcriptional regulator, efflux system |
| * | AP012306 | 1,267,578 | 0 | T | G | 24.4% | 171.5 / 22.1 | 82 | D60A (GAC→GCC) | ddpB | D‑Ala‑D‑Ala transporter subunit |
| * | AP012306 | 1,066,323 | 0 | A | C | 23.8% | 751.2 / 16.9 | 281 | intergenic (‑92/+33) | ychM/prsA | predicted transporter/phosphoribosylpyrophosphate synthase |
| * | AP012306 | 2,120,505 | 0 | A | C | 23.3% | 328.3 / 11.9 | 134 | G42G (GGT→GGG) | eutQ | conserved protein |
| * | AP012306 | 3,903,791 | 0 | A | G | 22.5% | 554.2 / 60.5 | 227 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 2,212,753 | 0 | A | C | 21.4% | 386.8 / 33.1 | 145 | Y241D (TAT→GAT) | hcaT | predicted 3‑phenylpropionic transporter |
| Marginal new junction evidence (lowest skew 10 of 68 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 3014868 | 349 (1.180) | 7 (0.030) | 7/274 | 17.9 | 2.1% | coding (930/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
| ? | AP012306 | = 3014856 | 323 (1.190) | coding (918/1506 nt) | glpD | sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding | |||||
| * | ? | AP012306 | = 2153226 | 218 (0.740) | 8 (0.030) | 8/294 | 17.9 | 3.6% | coding (683/1581 nt) | hyfF | hydrogenase 4, membrane subunit |
| ? | AP012306 | = 2153240 | 219 (0.750) | coding (697/1581 nt) | hyfF | hydrogenase 4, membrane subunit | |||||
| * | ? | AP012306 | 3677581 = | 292 (0.990) | 5 (0.020) | 5/270 | 19.0 | 1.9% | coding (398/1341 nt) | lamB | maltose outer membrane porin |
| ? | AP012306 | 3677595 = | 264 (0.990) | coding (412/1341 nt) | lamB | maltose outer membrane porin | |||||
| * | ? | AP012306 | = 2638249 | 290 (0.980) | 5 (0.020) | 5/274 | 19.1 | 1.9% | coding (351/927 nt) | yqhG | conserved protein |
| ? | AP012306 | = 2638237 | 261 (0.960) | coding (339/927 nt) | yqhG | conserved protein | |||||
| * | ? | AP012306 | 1856463 = | 213 (0.720) | 5 (0.020) | 5/274 | 19.1 | 2.5% | coding (1685/1761 nt) | yejH | predicted ATP‑dependet helicase |
| ? | AP012306 | 1856475 = | 196 (0.720) | coding (1697/1761 nt) | yejH | predicted ATP‑dependet helicase | |||||
| * | ? | AP012306 | = 1570961 | 259 (0.880) | 6 (0.020) | 5/290 | 19.5 | 2.3% | coding (453/696 nt) | yeaZ | predicted peptidase |
| ? | AP012306 | = 1570967 | 249 (0.870) | coding (447/696 nt) | yeaZ | predicted peptidase | |||||
| * | ? | AP012306 | 652177 = | 279 (0.940) | 5 (0.020) | 5/290 | 19.5 | 1.8% | coding (536/1149 nt) | galK | galactokinase |
| ? | AP012306 | 652205 = | 261 (0.910) | coding (508/1149 nt) | galK | galactokinase | |||||
| * | ? | AP012306 | = 416638 | 345 (1.170) | 4 (0.010) | 4/274 | 19.7 | 1.3% | coding (2485/2505 nt) | copA | copper transporter |
| ? | AP012306 | = 416626 | 309 (1.140) | coding (2497/2505 nt) | copA | copper transporter | |||||
| * | ? | AP012306 | = 3483350 | 280 (0.950) | 4 (0.010) | 4/280 | 19.9 | 1.5% | coding (1142/1410 nt) | glnG | fused DNA‑binding response regulator in two‑component regulatory system with GlnL, nitrogen regulator I |
| ? | AP012306 | = 3483370 | 253 (0.910) | coding (1122/1410 nt) | glnG | fused DNA‑binding response regulator in two‑component regulatory system with GlnL, nitrogen regulator I | |||||
| * | ? | AP012306 | 3774746 = | 334 (1.130) | 3 (0.010) | 3/258 | 20.0 | 1.0% | intergenic (‑86/+36) | yjdF/fumB | conserved inner membrane protein/anaerobic class I fumarate hydratase |
| ? | AP012306 | 3774766 = | 303 (1.190) | intergenic (‑106/+16) | yjdF/fumB | conserved inner membrane protein/anaerobic class I fumarate hydratase | |||||