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 26 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 | 48.0% | 357.6 / 105.5 | 281 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 39.7% | 347.7 / 74.9 | 215 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 3,020,670 | 0 | T | G | 33.0% | 343.6 / 13.0 | 201 | K195N (AAA→AAC) | glgC | glucose‑1‑phosphate adenylyltransferase |
| * | AP012306 | 3,527,368 | 0 | A | C | 32.7% | 568.8 / 66.6 | 261 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 3,903,791 | 0 | A | G | 28.7% | 504.1 / 91.5 | 244 | E189G (GAA→GGA) | yjgJ | predicted transcriptional regulator |
| * | AP012306 | 644,417 | 0 | G | A | 28.2% | 993.0 / inf | 574 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 202,417 | 0 | T | G | 28.0% | 634.1 / 48.7 | 293 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 1,226,557 | 0 | A | G | 27.6% | 384.5 / 88.2 | 186 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 1,066,323 | 0 | A | C | 26.3% | 685.4 / 26.7 | 264 | intergenic (‑92/+33) | ychM/prsA | predicted transporter/phosphoribosylpyrophosphate synthase |
| * | AP012306 | 800,675 | 0 | A | C | 24.9% | 548.5 / 32.2 | 233 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 1,854,851 | 0 | A | C | 24.5% | 674.6 / 58.1 | 261 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 2,758,909 | 0 | T | G | 24.5% | 530.0 / 17.1 | 208 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 3,182,861 | 0 | A | C | 24.4% | 349.8 / 19.5 | 135 | L198F (TTA→TTC) | yiaN | predicted transporter |
| * | AP012306 | 2,560,243 | 0 | T | G | 24.2% | 389.2 / 21.1 | 161 | N419T (AAC→ACC) | pepP | proline aminopeptidase P II |
| * | AP012306 | 3,590,367 | 0 | A | C | 23.7% | 745.8 / 29.2 | 279 | T30P (ACC→CCC) | fabR | DNA‑binding transcriptional repressor |
| * | AP012306 | 3,324,433 | 0 | T | A | 22.9% | 518.3 / 79.2 | 205 | intergenic (+2/+52) | yieF/yieG | chromate reductase, Class I, flavoprotein/predicted inner membrane protein |
| * | AP012306 | 2,558,071 | 0 | A | C | 22.7% | 624.6 / 25.0 | 248 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 3,938,887 | 0 | C | T | 22.5% | 617.5 / 112.5 | 258 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 406,677 | 0 | A | G | 22.2% | 517.0 / 18.2 | 199 | K294E (AAA→GAA) | hemH | ferrochelatase |
| * | AP012306 | 3,282,076 | 0 | T | G | 22.2% | 600.0 / 12.9 | 253 | intergenic (‑79/+27) | ilvB/ivbL | acetolactate synthase I, large subunit/ilvB operon leader peptide |
| Marginal new junction evidence (lowest skew 10 of 153 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 997497 | 333 (1.040) | 19 (0.070) | 18/268 | 9.7 | 6.7% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 228 (0.790) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | = 1092334 | 315 (0.980) | 16 (0.060) | 15/258 | 10.2 | 5.5% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 279 (1.000) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 1092512 | 424 (1.320) | 19 (0.070) | 14/258 | 10.5 | 5.6% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 279 (1.000) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 643749 | 383 (1.190) | 5 (0.020) | 5/224 | 12.9 | 1.3% | intergenic (+98/‑52) | lysW/valZ | tRNA‑Lys/tRNA‑Val |
| ? | AP012306 | 644542 = | 471 (1.950) | intergenic (+157/‑276) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||
| * | ? | AP012306 | = 2897654 | 373 (1.160) | 8 (0.030) | 7/290 | 13.3 | 2.2% | coding (222/258 nt) | yrdB | conserved protein |
| ? | AP012306 | = 2897666 | 355 (1.140) | coding (210/258 nt) | yrdB | conserved protein | |||||
| * | ? | AP012306 | 164617 = | 366 (1.140) | 7 (0.020) | 7/288 | 13.3 | 1.8% | coding (650/1422 nt) | clcA | chloride channel, voltage‑gated |
| ? | AP012306 | 164657 = | 414 (1.330) | coding (690/1422 nt) | clcA | chloride channel, voltage‑gated | |||||
| * | ? | AP012306 | = 644055 | 532 (1.660) | 4 (0.020) | 4/220 | 13.4 | 0.93% | intergenic (+100/‑47) | lysY/lysZ | tRNA‑Lys/tRNA‑Lys |
| ? | AP012306 | 644544 = | 457 (1.930) | intergenic (+159/‑274) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||
| * | ? | AP012306 | = 2244958 | 417 (1.300) | 6 (0.020) | 6/274 | 13.5 | 1.6% | coding (573/849 nt) | yfhH | predicted DNA‑binding transcriptional regulator |
| ? | AP012306 | = 2244946 | 378 (1.280) | coding (561/849 nt) | yfhH | predicted DNA‑binding transcriptional regulator | |||||
| * | ? | AP012306 | 3109422 = | 213 (0.660) | 6 (0.020) | 6/288 | 13.7 | 2.8% | coding (924/1650 nt) | treF | cytoplasmic trehalase |
| ? | AP012306 | 3109458 = | 212 (0.680) | coding (960/1650 nt) | treF | cytoplasmic trehalase | |||||
| * | ? | AP012306 | = 2470298 | 341 (1.060) | 7 (0.020) | 6/290 | 13.7 | 2.1% | coding (2666/3369 nt) | recC | exonuclease V (RecBCD complex), gamma chain |
| ? | AP012306 | = 2470321 | 309 (0.990) | coding (2643/3369 nt) | recC | exonuclease V (RecBCD complex), gamma chain | |||||