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 | 47.5% | 322.5 / 88.9 | 257 | intergenic (+38/‑145) | narI/ychS | nitrate reductase 1, gamma (cytochrome b(NR)) subunit/predicted protein |
| * | AP012306 | 1,944,288 | 0 | A | C | 38.2% | 348.5 / 59.3 | 206 | G361G (GGT→GGG) | menE | o‑succinylbenzoate‑CoA ligase |
| * | AP012306 | 341,377 | 0 | T | G | 35.1% | 144.1 / 17.6 | 94 | G60G (GGT→GGG) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| * | AP012306 | 644,417 | 0 | G | A | 32.9% | 757.0 / inf | 568 | intergenic (+32/‑401) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A |
| * | AP012306 | 3,527,368 | 0 | A | C | 32.4% | 441.3 / 56.1 | 222 | L140F (TTA→TTC) | rhaS | DNA‑binding transcriptional activator, L‑rhamnose‑binding |
| * | AP012306 | 2,758,909 | 0 | T | G | 30.1% | 523.3 / 29.0 | 236 | G33G (GGT→GGG) | agaD | N‑acetylgalactosamine‑specific enzyme IID component of PTS |
| * | AP012306 | 800,675 | 0 | A | C | 28.3% | 535.8 / 45.2 | 244 | T192P (ACC→CCC) | lolA | chaperone for lipoproteins |
| * | AP012306 | 2,680,345 | 0 | A | C | 28.2% | 362.9 / 36.0 | 170 | T184P (ACC→CCC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| * | AP012306 | 2,558,071 | 0 | A | C | 28.1% | 491.3 / 32.9 | 224 | V302G (GTA→GGA) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| * | AP012306 | 1,854,851 | 0 | A | C | 25.9% | 709.6 / 77.3 | 293 | T25P (ACC→CCC) | yejH | predicted ATP‑dependet helicase |
| * | AP012306 | 524,289 | 0 | T | G | 24.2% | 328.3 / 13.6 | 133 | N4T (AAC→ACC) | citD | citrate lyase, acyl carrier (gamma) subunit |
| * | AP012306 | 3,938,887 | 0 | C | T | 24.1% | 639.9 / 129.8 | 278 | S44F (TCT→TTT) | bglJ | DNA‑binding transcriptional regulator |
| * | AP012306 | 202,417 | 0 | T | G | 23.8% | 604.6 / 28.1 | 245 | V409G (GTA→GGA) | tilS | tRNA(Ile)‑lysidine synthetase |
| * | AP012306 | 472,868 | 0 | T | G | 23.7% | 568.2 / 16.2 | 220 | D435A (GAC→GCC) | cusS | sensory histidine kinase in two‑component regulatory system with CusR, senses copper ions |
| * | AP012306 | 3,282,076 | 0 | T | G | 23.1% | 571.3 / 17.4 | 256 | intergenic (‑79/+27) | ilvB/ivbL | acetolactate synthase I, large subunit/ilvB operon leader peptide |
| * | AP012306 | 2,714,555 | 0 | T | G | 22.6% | 716.5 / 16.6 | 293 | T175P (ACC→CCC) | ygjV | conserved inner membrane protein |
| * | AP012306 | 3,116,354 | 0 | T | G | 22.3% | 532.7 / 10.8 | 221 | T307P (ACC→CCC) | yhjG | predicted outer membrane biogenesis protein |
| * | AP012306 | 1,226,557 | 0 | A | G | 21.9% | 457.9 / 66.4 | 184 | G55G (GGA→GGG) | ydcU | predicted spermidine/putrescine transporter subunit |
| * | AP012306 | 1,128,412 | 0 | T | G | 21.8% | 683.8 / 16.6 | 258 | V29G (GTG→GGG) | yciO | conserved protein |
| * | AP012306 | 3,324,433 | 0 | T | A | 21.5% | 515.2 / 73.6 | 205 | intergenic (+2/+52) | yieF/yieG | chromate reductase, Class I, flavoprotein/predicted inner membrane protein |
| Marginal new junction evidence (lowest skew 10 of 71 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | AP012306 | = 1092512 | 352 (1.090) | 15 (0.050) | 12/258 | 9.9 | 4.8% | intergenic (+100/+3) | ychS/tpr | predicted protein/predicted protamine‑like protein |
| ? | AP012306 | 1092985 = | 292 (1.040) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | = 997497 | 299 (0.920) | 10 (0.030) | 9/268 | 11.0 | 3.5% | coding (41/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase |
| ? | AP012306 | 997993 = | 277 (0.950) | coding (537/1305 nt) | ndh | respiratory NADH dehydrogenase 2/cupric reductase | |||||
| * | ? | AP012306 | 644106 = | 509 (1.570) | 14 (0.040) +CCCGG |
9/288 | 11.3 | 3.5% | noncoding (5/76 nt) | lysZ | tRNA‑Lys |
| ? | AP012306 | = 2073541 | 301 (0.930) | intergenic (+1/‑46) | valX/valY | tRNA‑Val/tRNA‑Val | |||||
| * | ? | AP012306 | 644106 = | 509 (1.570) | 14 (0.050) +CCCGGG |
9/286 | 11.3 | 3.2% | noncoding (5/76 nt) | lysZ | tRNA‑Lys |
| ? | AP012306 | = 2073420 | 383 (1.180) | noncoding (76/76 nt) | valU | tRNA‑Val | |||||
| * | ? | AP012306 | = 1092334 | 328 (1.010) | 8 (0.030) | 7/258 | 11.5 | 2.7% | coding (198/276 nt) | ychS | predicted protein |
| ? | AP012306 | 1092985 = | 292 (1.040) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | AP012306 | 2410909 = | 473 (1.460) | 7 (0.020) | 7/286 | 12.0 | 1.5% | intergenic (‑101/‑218) | ygcW/yqcE | predicted deoxygluconate dehydrogenase/predicted transporter |
| ? | AP012306 | 2410933 = | 458 (1.480) | intergenic (‑125/‑194) | ygcW/yqcE | predicted deoxygluconate dehydrogenase/predicted transporter | |||||
| * | ? | AP012306 | 1359429 = | 319 (0.990) | 7 (0.020) | 7/296 | 12.1 | 2.1% | coding (58/1533 nt) | pntA | pyridine nucleotide transhydrogenase, alpha subunit |
| ? | AP012306 | 1359444 = | 330 (1.030) | coding (43/1533 nt) | pntA | pyridine nucleotide transhydrogenase, alpha subunit | |||||
| * | ? | AP012306 | = 966009 | 385 (1.190) | 6 (0.020) | 6/292 | 12.4 | 1.6% | coding (228/561 nt) | yceB | predicted lipoprotein |
| ? | AP012306 | = 966026 | 375 (1.180) | coding (211/561 nt) | yceB | predicted lipoprotein | |||||
| * | ? | AP012306 | = 2275012 | 298 (0.920) | 5 (0.020) | 5/274 | 12.6 | 1.8% | noncoding (60/76 nt) | gltW | tRNA‑Glu |
| ? | AP012306 | 3597656 = | 282 (0.950) | noncoding (72/76 nt) | gltT | tRNA‑Glu | |||||
| * | ? | AP012306 | 186236 = | 363 (1.120) | 6 (0.020) | 5/290 | 12.8 | 1.7% | coding (830/1353 nt) | yaeL | zinc metallopeptidase |
| ? | AP012306 | 186261 = | 351 (1.120) | coding (855/1353 nt) | yaeL | zinc metallopeptidase | |||||